xref: /petsc/src/mat/impls/aij/mpi/mpiaij.c (revision 0805154b586b8b442cadc3b330f361e4b8ccddde)
1be1d678aSKris Buschelman #define PETSCMAT_DLL
28a729477SBarry Smith 
3b47fd4b1SSatish Balay #include "src/mat/impls/aij/mpi/mpiaij.h"   /*I "petscmat.h" I*/
4d9942c19SSatish Balay #include "src/inline/spops.h"
58a729477SBarry Smith 
60f5bd95cSBarry Smith /*
70f5bd95cSBarry Smith   Local utility routine that creates a mapping from the global column
89e25ed09SBarry Smith number to the local number in the off-diagonal part of the local
90f5bd95cSBarry Smith storage of the matrix.  When PETSC_USE_CTABLE is used this is scalable at
100f5bd95cSBarry Smith a slightly higher hash table cost; without it it is not scalable (each processor
110f5bd95cSBarry Smith has an order N integer array but is fast to acess.
129e25ed09SBarry Smith */
134a2ae208SSatish Balay #undef __FUNCT__
144a2ae208SSatish Balay #define __FUNCT__ "CreateColmap_MPIAIJ_Private"
15dfbe8321SBarry Smith PetscErrorCode CreateColmap_MPIAIJ_Private(Mat mat)
169e25ed09SBarry Smith {
1744a69424SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
186849ba73SBarry Smith   PetscErrorCode ierr;
19899cda47SBarry Smith   PetscInt       n = aij->B->cmap.n,i;
20dbb450caSBarry Smith 
213a40ed3dSBarry Smith   PetscFunctionBegin;
22aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
23273d9f13SBarry Smith   ierr = PetscTableCreate(n,&aij->colmap);CHKERRQ(ierr);
24b1fc9764SSatish Balay   for (i=0; i<n; i++){
250f5bd95cSBarry Smith     ierr = PetscTableAdd(aij->colmap,aij->garray[i]+1,i+1);CHKERRQ(ierr);
26b1fc9764SSatish Balay   }
27b1fc9764SSatish Balay #else
28899cda47SBarry Smith   ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscInt),&aij->colmap);CHKERRQ(ierr);
29899cda47SBarry Smith   ierr = PetscLogObjectMemory(mat,mat->cmap.N*sizeof(PetscInt));CHKERRQ(ierr);
30899cda47SBarry Smith   ierr = PetscMemzero(aij->colmap,mat->cmap.N*sizeof(PetscInt));CHKERRQ(ierr);
31905e6a2fSBarry Smith   for (i=0; i<n; i++) aij->colmap[aij->garray[i]] = i+1;
32b1fc9764SSatish Balay #endif
333a40ed3dSBarry Smith   PetscFunctionReturn(0);
349e25ed09SBarry Smith }
359e25ed09SBarry Smith 
36085a36d4SBarry Smith 
370520107fSSatish Balay #define CHUNKSIZE   15
3830770e4dSSatish Balay #define MatSetValues_SeqAIJ_A_Private(row,col,value,addv) \
390520107fSSatish Balay { \
407cd84e04SBarry Smith     if (col <= lastcol1) low1 = 0; else high1 = nrow1; \
41fd3458f5SBarry Smith     lastcol1 = col;\
42fd3458f5SBarry Smith     while (high1-low1 > 5) { \
43fd3458f5SBarry Smith       t = (low1+high1)/2; \
44fd3458f5SBarry Smith       if (rp1[t] > col) high1 = t; \
45fd3458f5SBarry Smith       else             low1  = t; \
46ba4e3ef2SSatish Balay     } \
47fd3458f5SBarry Smith       for (_i=low1; _i<high1; _i++) { \
48fd3458f5SBarry Smith         if (rp1[_i] > col) break; \
49fd3458f5SBarry Smith         if (rp1[_i] == col) { \
50fd3458f5SBarry Smith           if (addv == ADD_VALUES) ap1[_i] += value;   \
51fd3458f5SBarry Smith           else                    ap1[_i] = value; \
5230770e4dSSatish Balay           goto a_noinsert; \
530520107fSSatish Balay         } \
540520107fSSatish Balay       }  \
55abc0a331SBarry Smith       if (value == 0.0 && ignorezeroentries) goto a_noinsert; \
5689280ab3SLois Curfman McInnes       if (nonew == 1) goto a_noinsert; \
57085a36d4SBarry Smith       if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \
58421e10b8SBarry Smith       MatSeqXAIJReallocateAIJ(A,am,1,nrow1,row,col,rmax1,aa,ai,aj,rp1,ap1,aimax,nonew,MatScalar); \
59669a8dbcSSatish Balay       N = nrow1++ - 1; a->nz++; high1++; \
600520107fSSatish Balay       /* shift up all the later entries in this row */ \
610520107fSSatish Balay       for (ii=N; ii>=_i; ii--) { \
62fd3458f5SBarry Smith         rp1[ii+1] = rp1[ii]; \
63fd3458f5SBarry Smith         ap1[ii+1] = ap1[ii]; \
640520107fSSatish Balay       } \
65fd3458f5SBarry Smith       rp1[_i] = col;  \
66fd3458f5SBarry Smith       ap1[_i] = value;  \
6730770e4dSSatish Balay       a_noinsert: ; \
68fd3458f5SBarry Smith       ailen[row] = nrow1; \
690520107fSSatish Balay }
700a198c4cSBarry Smith 
71085a36d4SBarry Smith 
7230770e4dSSatish Balay #define MatSetValues_SeqAIJ_B_Private(row,col,value,addv) \
7330770e4dSSatish Balay { \
747cd84e04SBarry Smith     if (col <= lastcol2) low2 = 0; else high2 = nrow2; \
75fd3458f5SBarry Smith     lastcol2 = col;\
76fd3458f5SBarry Smith     while (high2-low2 > 5) { \
77fd3458f5SBarry Smith       t = (low2+high2)/2; \
78fd3458f5SBarry Smith       if (rp2[t] > col) high2 = t; \
79fd3458f5SBarry Smith       else             low2  = t; \
80ba4e3ef2SSatish Balay     } \
81fd3458f5SBarry Smith        for (_i=low2; _i<high2; _i++) { \
82fd3458f5SBarry Smith         if (rp2[_i] > col) break; \
83fd3458f5SBarry Smith         if (rp2[_i] == col) { \
84fd3458f5SBarry Smith           if (addv == ADD_VALUES) ap2[_i] += value;   \
85fd3458f5SBarry Smith           else                    ap2[_i] = value; \
8630770e4dSSatish Balay           goto b_noinsert; \
8730770e4dSSatish Balay         } \
8830770e4dSSatish Balay       }  \
89abc0a331SBarry Smith       if (value == 0.0 && ignorezeroentries) goto b_noinsert; \
9089280ab3SLois Curfman McInnes       if (nonew == 1) goto b_noinsert; \
91085a36d4SBarry Smith       if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \
92421e10b8SBarry Smith       MatSeqXAIJReallocateAIJ(B,bm,1,nrow2,row,col,rmax2,ba,bi,bj,rp2,ap2,bimax,nonew,MatScalar); \
93669a8dbcSSatish Balay       N = nrow2++ - 1; b->nz++; high2++;\
9430770e4dSSatish Balay       /* shift up all the later entries in this row */ \
9530770e4dSSatish Balay       for (ii=N; ii>=_i; ii--) { \
96fd3458f5SBarry Smith         rp2[ii+1] = rp2[ii]; \
97fd3458f5SBarry Smith         ap2[ii+1] = ap2[ii]; \
9830770e4dSSatish Balay       } \
99fd3458f5SBarry Smith       rp2[_i] = col;  \
100fd3458f5SBarry Smith       ap2[_i] = value;  \
10130770e4dSSatish Balay       b_noinsert: ; \
102fd3458f5SBarry Smith       bilen[row] = nrow2; \
10330770e4dSSatish Balay }
10430770e4dSSatish Balay 
1054a2ae208SSatish Balay #undef __FUNCT__
1062fd7e33dSBarry Smith #define __FUNCT__ "MatSetValuesRow_MPIAIJ"
1072fd7e33dSBarry Smith PetscErrorCode MatSetValuesRow_MPIAIJ(Mat A,PetscInt row,const PetscScalar v[])
1082fd7e33dSBarry Smith {
1092fd7e33dSBarry Smith   Mat_MPIAIJ     *mat = (Mat_MPIAIJ*)A->data;
1102fd7e33dSBarry Smith   Mat_SeqAIJ     *a = (Mat_SeqAIJ*)mat->A->data,*b = (Mat_SeqAIJ*)mat->B->data;
1112fd7e33dSBarry Smith   PetscErrorCode ierr;
1122fd7e33dSBarry Smith   PetscInt       l,*garray = mat->garray,diag;
1132fd7e33dSBarry Smith 
1142fd7e33dSBarry Smith   PetscFunctionBegin;
1152fd7e33dSBarry Smith   /* code only works for square matrices A */
1162fd7e33dSBarry Smith 
1172fd7e33dSBarry Smith   /* find size of row to the left of the diagonal part */
1182fd7e33dSBarry Smith   ierr = MatGetOwnershipRange(A,&diag,0);CHKERRQ(ierr);
1192fd7e33dSBarry Smith   row  = row - diag;
1202fd7e33dSBarry Smith   for (l=0; l<b->i[row+1]-b->i[row]; l++) {
1212fd7e33dSBarry Smith     if (garray[b->j[b->i[row]+l]] > diag) break;
1222fd7e33dSBarry Smith   }
1232fd7e33dSBarry Smith   ierr = PetscMemcpy(b->a+b->i[row],v,l*sizeof(PetscScalar));CHKERRQ(ierr);
1242fd7e33dSBarry Smith 
1252fd7e33dSBarry Smith   /* diagonal part */
1262fd7e33dSBarry Smith   ierr = PetscMemcpy(a->a+a->i[row],v+l,(a->i[row+1]-a->i[row])*sizeof(PetscScalar));CHKERRQ(ierr);
1272fd7e33dSBarry Smith 
1282fd7e33dSBarry Smith   /* right of diagonal part */
1292fd7e33dSBarry Smith   ierr = PetscMemcpy(b->a+b->i[row]+l,v+l+a->i[row+1]-a->i[row],(b->i[row+1]-b->i[row]-l)*sizeof(PetscScalar));CHKERRQ(ierr);
1302fd7e33dSBarry Smith   PetscFunctionReturn(0);
1312fd7e33dSBarry Smith }
1322fd7e33dSBarry Smith 
1332fd7e33dSBarry Smith #undef __FUNCT__
1344a2ae208SSatish Balay #define __FUNCT__ "MatSetValues_MPIAIJ"
135b1d57f15SBarry Smith PetscErrorCode MatSetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv)
1368a729477SBarry Smith {
13744a69424SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
13887828ca2SBarry Smith   PetscScalar    value;
139dfbe8321SBarry Smith   PetscErrorCode ierr;
140899cda47SBarry Smith   PetscInt       i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend;
141899cda47SBarry Smith   PetscInt       cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col;
142273d9f13SBarry Smith   PetscTruth     roworiented = aij->roworiented;
1438a729477SBarry Smith 
1440520107fSSatish Balay   /* Some Variables required in the macro */
1454ee7247eSSatish Balay   Mat            A = aij->A;
1464ee7247eSSatish Balay   Mat_SeqAIJ     *a = (Mat_SeqAIJ*)A->data;
14757809a77SBarry Smith   PetscInt       *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j;
14887828ca2SBarry Smith   PetscScalar    *aa = a->a;
149edb03aefSBarry Smith   PetscTruth     ignorezeroentries = a->ignorezeroentries;
15030770e4dSSatish Balay   Mat            B = aij->B;
15130770e4dSSatish Balay   Mat_SeqAIJ     *b = (Mat_SeqAIJ*)B->data;
152899cda47SBarry Smith   PetscInt       *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->rmap.n,am = aij->A->rmap.n;
15387828ca2SBarry Smith   PetscScalar    *ba = b->a;
15430770e4dSSatish Balay 
155fd3458f5SBarry Smith   PetscInt       *rp1,*rp2,ii,nrow1,nrow2,_i,rmax1,rmax2,N,low1,high1,low2,high2,t,lastcol1,lastcol2;
156fd3458f5SBarry Smith   PetscInt       nonew = a->nonew;
157fd3458f5SBarry Smith   PetscScalar    *ap1,*ap2;
1584ee7247eSSatish Balay 
1593a40ed3dSBarry Smith   PetscFunctionBegin;
1608a729477SBarry Smith   for (i=0; i<m; i++) {
1615ef9f2a5SBarry Smith     if (im[i] < 0) continue;
1622515c552SBarry Smith #if defined(PETSC_USE_DEBUG)
163899cda47SBarry Smith     if (im[i] >= mat->rmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->rmap.N-1);
1640a198c4cSBarry Smith #endif
1654b0e389bSBarry Smith     if (im[i] >= rstart && im[i] < rend) {
1664b0e389bSBarry Smith       row      = im[i] - rstart;
167fd3458f5SBarry Smith       lastcol1 = -1;
168fd3458f5SBarry Smith       rp1      = aj + ai[row];
169fd3458f5SBarry Smith       ap1      = aa + ai[row];
170fd3458f5SBarry Smith       rmax1    = aimax[row];
171fd3458f5SBarry Smith       nrow1    = ailen[row];
172fd3458f5SBarry Smith       low1     = 0;
173fd3458f5SBarry Smith       high1    = nrow1;
174fd3458f5SBarry Smith       lastcol2 = -1;
175fd3458f5SBarry Smith       rp2      = bj + bi[row];
176d498b1e9SBarry Smith       ap2      = ba + bi[row];
177fd3458f5SBarry Smith       rmax2    = bimax[row];
178d498b1e9SBarry Smith       nrow2    = bilen[row];
179fd3458f5SBarry Smith       low2     = 0;
180fd3458f5SBarry Smith       high2    = nrow2;
181fd3458f5SBarry Smith 
1821eb62cbbSBarry Smith       for (j=0; j<n; j++) {
1834b0e389bSBarry Smith         if (roworiented) value = v[i*n+j]; else value = v[i+j*m];
184abc0a331SBarry Smith         if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue;
185fd3458f5SBarry Smith         if (in[j] >= cstart && in[j] < cend){
186fd3458f5SBarry Smith           col = in[j] - cstart;
18730770e4dSSatish Balay           MatSetValues_SeqAIJ_A_Private(row,col,value,addv);
188273d9f13SBarry Smith         } else if (in[j] < 0) continue;
1892515c552SBarry Smith #if defined(PETSC_USE_DEBUG)
190899cda47SBarry Smith         else if (in[j] >= mat->cmap.N) {SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->cmap.N-1);}
1910a198c4cSBarry Smith #endif
1921eb62cbbSBarry Smith         else {
193227d817aSBarry Smith           if (mat->was_assembled) {
194905e6a2fSBarry Smith             if (!aij->colmap) {
195905e6a2fSBarry Smith               ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr);
196905e6a2fSBarry Smith             }
197aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
1980f5bd95cSBarry Smith             ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr);
199fa46199cSSatish Balay 	    col--;
200b1fc9764SSatish Balay #else
201905e6a2fSBarry Smith             col = aij->colmap[in[j]] - 1;
202b1fc9764SSatish Balay #endif
203ec8511deSBarry Smith             if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) {
2042493cbb0SBarry Smith               ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr);
2054b0e389bSBarry Smith               col =  in[j];
2069bf004c3SSatish Balay               /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */
207f9508a3cSSatish Balay               B = aij->B;
208f9508a3cSSatish Balay               b = (Mat_SeqAIJ*)B->data;
209f9508a3cSSatish Balay               bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j;
210d498b1e9SBarry Smith               rp2      = bj + bi[row];
211d498b1e9SBarry Smith               ap2      = ba + bi[row];
212d498b1e9SBarry Smith               rmax2    = bimax[row];
213d498b1e9SBarry Smith               nrow2    = bilen[row];
214d498b1e9SBarry Smith               low2     = 0;
215d498b1e9SBarry Smith               high2    = nrow2;
216899cda47SBarry Smith               bm       = aij->B->rmap.n;
217f9508a3cSSatish Balay               ba = b->a;
218d6dfbf8fSBarry Smith             }
219c48de900SBarry Smith           } else col = in[j];
22030770e4dSSatish Balay           MatSetValues_SeqAIJ_B_Private(row,col,value,addv);
2211eb62cbbSBarry Smith         }
2221eb62cbbSBarry Smith       }
2235ef9f2a5SBarry Smith     } else {
22490f02eecSBarry Smith       if (!aij->donotstash) {
225d36fbae8SSatish Balay         if (roworiented) {
2265b8514ebSBarry Smith           if (ignorezeroentries && v[i*n] == 0.0) continue;
2278798bf22SSatish Balay           ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr);
228d36fbae8SSatish Balay         } else {
2295b8514ebSBarry Smith           if (ignorezeroentries && v[i] == 0.0) continue;
2308798bf22SSatish Balay           ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr);
2314b0e389bSBarry Smith         }
2321eb62cbbSBarry Smith       }
2338a729477SBarry Smith     }
23490f02eecSBarry Smith   }
2353a40ed3dSBarry Smith   PetscFunctionReturn(0);
2368a729477SBarry Smith }
2378a729477SBarry Smith 
2384a2ae208SSatish Balay #undef __FUNCT__
2394a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_MPIAIJ"
240b1d57f15SBarry Smith PetscErrorCode MatGetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[])
241b49de8d1SLois Curfman McInnes {
242b49de8d1SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
243dfbe8321SBarry Smith   PetscErrorCode ierr;
244899cda47SBarry Smith   PetscInt       i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend;
245899cda47SBarry Smith   PetscInt       cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col;
246b49de8d1SLois Curfman McInnes 
2473a40ed3dSBarry Smith   PetscFunctionBegin;
248b49de8d1SLois Curfman McInnes   for (i=0; i<m; i++) {
24997e567efSBarry Smith     if (idxm[i] < 0) continue; /* SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",idxm[i]);*/
250899cda47SBarry Smith     if (idxm[i] >= mat->rmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",idxm[i],mat->rmap.N-1);
251b49de8d1SLois Curfman McInnes     if (idxm[i] >= rstart && idxm[i] < rend) {
252b49de8d1SLois Curfman McInnes       row = idxm[i] - rstart;
253b49de8d1SLois Curfman McInnes       for (j=0; j<n; j++) {
25497e567efSBarry Smith         if (idxn[j] < 0) continue; /* SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",idxn[j]); */
255899cda47SBarry Smith         if (idxn[j] >= mat->cmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",idxn[j],mat->cmap.N-1);
256b49de8d1SLois Curfman McInnes         if (idxn[j] >= cstart && idxn[j] < cend){
257b49de8d1SLois Curfman McInnes           col = idxn[j] - cstart;
258b49de8d1SLois Curfman McInnes           ierr = MatGetValues(aij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr);
259fa852ad4SSatish Balay         } else {
260905e6a2fSBarry Smith           if (!aij->colmap) {
261905e6a2fSBarry Smith             ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr);
262905e6a2fSBarry Smith           }
263aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
2640f5bd95cSBarry Smith           ierr = PetscTableFind(aij->colmap,idxn[j]+1,&col);CHKERRQ(ierr);
265fa46199cSSatish Balay           col --;
266b1fc9764SSatish Balay #else
267905e6a2fSBarry Smith           col = aij->colmap[idxn[j]] - 1;
268b1fc9764SSatish Balay #endif
269e60e1c95SSatish Balay           if ((col < 0) || (aij->garray[col] != idxn[j])) *(v+i*n+j) = 0.0;
270d9d09a02SSatish Balay           else {
271b49de8d1SLois Curfman McInnes             ierr = MatGetValues(aij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr);
272b49de8d1SLois Curfman McInnes           }
273b49de8d1SLois Curfman McInnes         }
274b49de8d1SLois Curfman McInnes       }
275a8c6a408SBarry Smith     } else {
27629bbc08cSBarry Smith       SETERRQ(PETSC_ERR_SUP,"Only local values currently supported");
277b49de8d1SLois Curfman McInnes     }
278b49de8d1SLois Curfman McInnes   }
2793a40ed3dSBarry Smith   PetscFunctionReturn(0);
280b49de8d1SLois Curfman McInnes }
281bc5ccf88SSatish Balay 
2824a2ae208SSatish Balay #undef __FUNCT__
2834a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyBegin_MPIAIJ"
284dfbe8321SBarry Smith PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat,MatAssemblyType mode)
285bc5ccf88SSatish Balay {
286bc5ccf88SSatish Balay   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
287dfbe8321SBarry Smith   PetscErrorCode ierr;
288b1d57f15SBarry Smith   PetscInt       nstash,reallocs;
289bc5ccf88SSatish Balay   InsertMode     addv;
290bc5ccf88SSatish Balay 
291bc5ccf88SSatish Balay   PetscFunctionBegin;
292bc5ccf88SSatish Balay   if (aij->donotstash) {
293bc5ccf88SSatish Balay     PetscFunctionReturn(0);
294bc5ccf88SSatish Balay   }
295bc5ccf88SSatish Balay 
296bc5ccf88SSatish Balay   /* make sure all processors are either in INSERTMODE or ADDMODE */
2977adad957SLisandro Dalcin   ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,((PetscObject)mat)->comm);CHKERRQ(ierr);
298bc5ccf88SSatish Balay   if (addv == (ADD_VALUES|INSERT_VALUES)) {
29929bbc08cSBarry Smith     SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Some processors inserted others added");
300bc5ccf88SSatish Balay   }
301bc5ccf88SSatish Balay   mat->insertmode = addv; /* in case this processor had no cache */
302bc5ccf88SSatish Balay 
3031e2582c4SBarry Smith   ierr = MatStashScatterBegin_Private(mat,&mat->stash,mat->rmap.range);CHKERRQ(ierr);
3048798bf22SSatish Balay   ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr);
305ae15b995SBarry Smith   ierr = PetscInfo2(aij->A,"Stash has %D entries, uses %D mallocs.\n",nstash,reallocs);CHKERRQ(ierr);
306bc5ccf88SSatish Balay   PetscFunctionReturn(0);
307bc5ccf88SSatish Balay }
308bc5ccf88SSatish Balay 
3094a2ae208SSatish Balay #undef __FUNCT__
3104a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ"
311dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode)
312bc5ccf88SSatish Balay {
313bc5ccf88SSatish Balay   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
31491c97fd4SSatish Balay   Mat_SeqAIJ     *a=(Mat_SeqAIJ *)aij->A->data;
3156849ba73SBarry Smith   PetscErrorCode ierr;
316b1d57f15SBarry Smith   PetscMPIInt    n;
317b1d57f15SBarry Smith   PetscInt       i,j,rstart,ncols,flg;
318b1d57f15SBarry Smith   PetscInt       *row,*col,other_disassembled;
31987828ca2SBarry Smith   PetscScalar    *val;
320bc5ccf88SSatish Balay   InsertMode     addv = mat->insertmode;
321bc5ccf88SSatish Balay 
32291c97fd4SSatish Balay   /* do not use 'b = (Mat_SeqAIJ *)aij->B->data' as B can be reset in disassembly */
323bc5ccf88SSatish Balay   PetscFunctionBegin;
324bc5ccf88SSatish Balay   if (!aij->donotstash) {
325a2d1c673SSatish Balay     while (1) {
3268798bf22SSatish Balay       ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr);
327a2d1c673SSatish Balay       if (!flg) break;
328a2d1c673SSatish Balay 
329bc5ccf88SSatish Balay       for (i=0; i<n;) {
330bc5ccf88SSatish Balay         /* Now identify the consecutive vals belonging to the same row */
331bc5ccf88SSatish Balay         for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; }
332bc5ccf88SSatish Balay         if (j < n) ncols = j-i;
333bc5ccf88SSatish Balay         else       ncols = n-i;
334bc5ccf88SSatish Balay         /* Now assemble all these values with a single function call */
335bc5ccf88SSatish Balay         ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr);
336bc5ccf88SSatish Balay         i = j;
337bc5ccf88SSatish Balay       }
338bc5ccf88SSatish Balay     }
3398798bf22SSatish Balay     ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr);
340bc5ccf88SSatish Balay   }
3412f53aa61SHong Zhang   a->compressedrow.use     = PETSC_FALSE;
342bc5ccf88SSatish Balay   ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr);
343bc5ccf88SSatish Balay   ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr);
344bc5ccf88SSatish Balay 
345bc5ccf88SSatish Balay   /* determine if any processor has disassembled, if so we must
346bc5ccf88SSatish Balay      also disassemble ourselfs, in order that we may reassemble. */
347bc5ccf88SSatish Balay   /*
348bc5ccf88SSatish Balay      if nonzero structure of submatrix B cannot change then we know that
349bc5ccf88SSatish Balay      no processor disassembled thus we can skip this stuff
350bc5ccf88SSatish Balay   */
351bc5ccf88SSatish Balay   if (!((Mat_SeqAIJ*)aij->B->data)->nonew)  {
3527adad957SLisandro Dalcin     ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,((PetscObject)mat)->comm);CHKERRQ(ierr);
353bc5ccf88SSatish Balay     if (mat->was_assembled && !other_disassembled) {
354bc5ccf88SSatish Balay       ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr);
355ad59fb31SSatish Balay     }
356ad59fb31SSatish Balay   }
357bc5ccf88SSatish Balay   if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) {
358bc5ccf88SSatish Balay     ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr);
359bc5ccf88SSatish Balay   }
3604e0d8c25SBarry Smith   ierr = MatSetOption(aij->B,MAT_USE_INODES,PETSC_FALSE);CHKERRQ(ierr);
36191c97fd4SSatish Balay   ((Mat_SeqAIJ *)aij->B->data)->compressedrow.use = PETSC_TRUE; /* b->compressedrow.use */
362bc5ccf88SSatish Balay   ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr);
363bc5ccf88SSatish Balay   ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr);
364bc5ccf88SSatish Balay 
365606d414cSSatish Balay   ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);
366606d414cSSatish Balay   aij->rowvalues = 0;
367a30b2313SHong Zhang 
368a30b2313SHong Zhang   /* used by MatAXPY() */
36991c97fd4SSatish Balay   a->xtoy = 0; ((Mat_SeqAIJ *)aij->B->data)->xtoy = 0;  /* b->xtoy = 0 */
37091c97fd4SSatish Balay   a->XtoY = 0; ((Mat_SeqAIJ *)aij->B->data)->XtoY = 0;  /* b->XtoY = 0 */
371a30b2313SHong Zhang 
372bc5ccf88SSatish Balay   PetscFunctionReturn(0);
373bc5ccf88SSatish Balay }
374bc5ccf88SSatish Balay 
3754a2ae208SSatish Balay #undef __FUNCT__
3764a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ"
377dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A)
3781eb62cbbSBarry Smith {
37944a69424SLois Curfman McInnes   Mat_MPIAIJ     *l = (Mat_MPIAIJ*)A->data;
380dfbe8321SBarry Smith   PetscErrorCode ierr;
3813a40ed3dSBarry Smith 
3823a40ed3dSBarry Smith   PetscFunctionBegin;
38378b31e54SBarry Smith   ierr = MatZeroEntries(l->A);CHKERRQ(ierr);
38478b31e54SBarry Smith   ierr = MatZeroEntries(l->B);CHKERRQ(ierr);
3853a40ed3dSBarry Smith   PetscFunctionReturn(0);
3861eb62cbbSBarry Smith }
3871eb62cbbSBarry Smith 
3884a2ae208SSatish Balay #undef __FUNCT__
3894a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ"
390f4df32b1SMatthew Knepley PetscErrorCode MatZeroRows_MPIAIJ(Mat A,PetscInt N,const PetscInt rows[],PetscScalar diag)
3911eb62cbbSBarry Smith {
39244a69424SLois Curfman McInnes   Mat_MPIAIJ     *l = (Mat_MPIAIJ*)A->data;
3936849ba73SBarry Smith   PetscErrorCode ierr;
3947adad957SLisandro Dalcin   PetscMPIInt    size = l->size,imdex,n,rank = l->rank,tag = ((PetscObject)A)->tag,lastidx = -1;
395899cda47SBarry Smith   PetscInt       i,*owners = A->rmap.range;
396b1d57f15SBarry Smith   PetscInt       *nprocs,j,idx,nsends,row;
397b1d57f15SBarry Smith   PetscInt       nmax,*svalues,*starts,*owner,nrecvs;
398b1d57f15SBarry Smith   PetscInt       *rvalues,count,base,slen,*source;
399899cda47SBarry Smith   PetscInt       *lens,*lrows,*values,rstart=A->rmap.rstart;
4007adad957SLisandro Dalcin   MPI_Comm       comm = ((PetscObject)A)->comm;
4011eb62cbbSBarry Smith   MPI_Request    *send_waits,*recv_waits;
4021eb62cbbSBarry Smith   MPI_Status     recv_status,*send_status;
4036543fbbaSBarry Smith #if defined(PETSC_DEBUG)
4046543fbbaSBarry Smith   PetscTruth     found = PETSC_FALSE;
4056543fbbaSBarry Smith #endif
4061eb62cbbSBarry Smith 
4073a40ed3dSBarry Smith   PetscFunctionBegin;
4081eb62cbbSBarry Smith   /*  first count number of contributors to each processor */
409b1d57f15SBarry Smith   ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr);
410b1d57f15SBarry Smith   ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr);
411b1d57f15SBarry Smith   ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/
4126543fbbaSBarry Smith   j = 0;
4131eb62cbbSBarry Smith   for (i=0; i<N; i++) {
4146543fbbaSBarry Smith     if (lastidx > (idx = rows[i])) j = 0;
4156543fbbaSBarry Smith     lastidx = idx;
4166543fbbaSBarry Smith     for (; j<size; j++) {
4171eb62cbbSBarry Smith       if (idx >= owners[j] && idx < owners[j+1]) {
4186543fbbaSBarry Smith         nprocs[2*j]++;
4196543fbbaSBarry Smith         nprocs[2*j+1] = 1;
4206543fbbaSBarry Smith         owner[i] = j;
4216543fbbaSBarry Smith #if defined(PETSC_DEBUG)
4226543fbbaSBarry Smith         found = PETSC_TRUE;
4236543fbbaSBarry Smith #endif
4246543fbbaSBarry Smith         break;
4251eb62cbbSBarry Smith       }
4261eb62cbbSBarry Smith     }
4276543fbbaSBarry Smith #if defined(PETSC_DEBUG)
42829bbc08cSBarry Smith     if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range");
4296543fbbaSBarry Smith     found = PETSC_FALSE;
4306543fbbaSBarry Smith #endif
4311eb62cbbSBarry Smith   }
432c1dc657dSBarry Smith   nsends = 0;  for (i=0; i<size; i++) { nsends += nprocs[2*i+1];}
4331eb62cbbSBarry Smith 
4341eb62cbbSBarry Smith   /* inform other processors of number of messages and max length*/
435c1dc657dSBarry Smith   ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr);
4361eb62cbbSBarry Smith 
4371eb62cbbSBarry Smith   /* post receives:   */
438b1d57f15SBarry Smith   ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr);
439b0a32e0cSBarry Smith   ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr);
4401eb62cbbSBarry Smith   for (i=0; i<nrecvs; i++) {
441b1d57f15SBarry Smith     ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr);
4421eb62cbbSBarry Smith   }
4431eb62cbbSBarry Smith 
4441eb62cbbSBarry Smith   /* do sends:
4451eb62cbbSBarry Smith       1) starts[i] gives the starting index in svalues for stuff going to
4461eb62cbbSBarry Smith          the ith processor
4471eb62cbbSBarry Smith   */
448b1d57f15SBarry Smith   ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr);
449b0a32e0cSBarry Smith   ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr);
450b1d57f15SBarry Smith   ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr);
4511eb62cbbSBarry Smith   starts[0] = 0;
452c1dc657dSBarry Smith   for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];}
4531eb62cbbSBarry Smith   for (i=0; i<N; i++) {
4541eb62cbbSBarry Smith     svalues[starts[owner[i]]++] = rows[i];
4551eb62cbbSBarry Smith   }
4561eb62cbbSBarry Smith 
4571eb62cbbSBarry Smith   starts[0] = 0;
458c1dc657dSBarry Smith   for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];}
4591eb62cbbSBarry Smith   count = 0;
46017699dbbSLois Curfman McInnes   for (i=0; i<size; i++) {
461c1dc657dSBarry Smith     if (nprocs[2*i+1]) {
462b1d57f15SBarry Smith       ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr);
4631eb62cbbSBarry Smith     }
4641eb62cbbSBarry Smith   }
465606d414cSSatish Balay   ierr = PetscFree(starts);CHKERRQ(ierr);
4661eb62cbbSBarry Smith 
46717699dbbSLois Curfman McInnes   base = owners[rank];
4681eb62cbbSBarry Smith 
4691eb62cbbSBarry Smith   /*  wait on receives */
470b1d57f15SBarry Smith   ierr   = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr);
4711eb62cbbSBarry Smith   source = lens + nrecvs;
4721eb62cbbSBarry Smith   count  = nrecvs; slen = 0;
4731eb62cbbSBarry Smith   while (count) {
474ca161407SBarry Smith     ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr);
4751eb62cbbSBarry Smith     /* unpack receives into our local space */
476b1d57f15SBarry Smith     ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr);
477d6dfbf8fSBarry Smith     source[imdex]  = recv_status.MPI_SOURCE;
478d6dfbf8fSBarry Smith     lens[imdex]    = n;
4791eb62cbbSBarry Smith     slen          += n;
4801eb62cbbSBarry Smith     count--;
4811eb62cbbSBarry Smith   }
482606d414cSSatish Balay   ierr = PetscFree(recv_waits);CHKERRQ(ierr);
4831eb62cbbSBarry Smith 
4841eb62cbbSBarry Smith   /* move the data into the send scatter */
485b1d57f15SBarry Smith   ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr);
4861eb62cbbSBarry Smith   count = 0;
4871eb62cbbSBarry Smith   for (i=0; i<nrecvs; i++) {
4881eb62cbbSBarry Smith     values = rvalues + i*nmax;
4891eb62cbbSBarry Smith     for (j=0; j<lens[i]; j++) {
4901eb62cbbSBarry Smith       lrows[count++] = values[j] - base;
4911eb62cbbSBarry Smith     }
4921eb62cbbSBarry Smith   }
493606d414cSSatish Balay   ierr = PetscFree(rvalues);CHKERRQ(ierr);
494606d414cSSatish Balay   ierr = PetscFree(lens);CHKERRQ(ierr);
495606d414cSSatish Balay   ierr = PetscFree(owner);CHKERRQ(ierr);
496606d414cSSatish Balay   ierr = PetscFree(nprocs);CHKERRQ(ierr);
4971eb62cbbSBarry Smith 
4981eb62cbbSBarry Smith   /* actually zap the local rows */
4996eb55b6aSBarry Smith   /*
5006eb55b6aSBarry Smith         Zero the required rows. If the "diagonal block" of the matrix
501a8c7a070SBarry Smith      is square and the user wishes to set the diagonal we use separate
5026eb55b6aSBarry Smith      code so that MatSetValues() is not called for each diagonal allocating
5036eb55b6aSBarry Smith      new memory, thus calling lots of mallocs and slowing things down.
5046eb55b6aSBarry Smith 
505f4df32b1SMatthew Knepley        Contributed by: Matthew Knepley
5066eb55b6aSBarry Smith   */
507e2d53e46SBarry Smith   /* must zero l->B before l->A because the (diag) case below may put values into l->B*/
508f4df32b1SMatthew Knepley   ierr = MatZeroRows(l->B,slen,lrows,0.0);CHKERRQ(ierr);
509899cda47SBarry Smith   if ((diag != 0.0) && (l->A->rmap.N == l->A->cmap.N)) {
510f4df32b1SMatthew Knepley     ierr      = MatZeroRows(l->A,slen,lrows,diag);CHKERRQ(ierr);
511f4df32b1SMatthew Knepley   } else if (diag != 0.0) {
512f4df32b1SMatthew Knepley     ierr = MatZeroRows(l->A,slen,lrows,0.0);CHKERRQ(ierr);
513fa46199cSSatish Balay     if (((Mat_SeqAIJ*)l->A->data)->nonew) {
51429bbc08cSBarry Smith       SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\
515512a5fc5SBarry Smith MAT_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR");
5166525c446SSatish Balay     }
517e2d53e46SBarry Smith     for (i = 0; i < slen; i++) {
518e2d53e46SBarry Smith       row  = lrows[i] + rstart;
519f4df32b1SMatthew Knepley       ierr = MatSetValues(A,1,&row,1,&row,&diag,INSERT_VALUES);CHKERRQ(ierr);
520e2d53e46SBarry Smith     }
521e2d53e46SBarry Smith     ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
522e2d53e46SBarry Smith     ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
5236eb55b6aSBarry Smith   } else {
524f4df32b1SMatthew Knepley     ierr = MatZeroRows(l->A,slen,lrows,0.0);CHKERRQ(ierr);
5256eb55b6aSBarry Smith   }
526606d414cSSatish Balay   ierr = PetscFree(lrows);CHKERRQ(ierr);
52772dacd9aSBarry Smith 
5281eb62cbbSBarry Smith   /* wait on sends */
5291eb62cbbSBarry Smith   if (nsends) {
530b0a32e0cSBarry Smith     ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr);
531ca161407SBarry Smith     ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr);
532606d414cSSatish Balay     ierr = PetscFree(send_status);CHKERRQ(ierr);
5331eb62cbbSBarry Smith   }
534606d414cSSatish Balay   ierr = PetscFree(send_waits);CHKERRQ(ierr);
535606d414cSSatish Balay   ierr = PetscFree(svalues);CHKERRQ(ierr);
5361eb62cbbSBarry Smith 
5373a40ed3dSBarry Smith   PetscFunctionReturn(0);
5381eb62cbbSBarry Smith }
5391eb62cbbSBarry Smith 
5404a2ae208SSatish Balay #undef __FUNCT__
5414a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ"
542dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy)
5431eb62cbbSBarry Smith {
544416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
545dfbe8321SBarry Smith   PetscErrorCode ierr;
546b1d57f15SBarry Smith   PetscInt       nt;
547416022c9SBarry Smith 
5483a40ed3dSBarry Smith   PetscFunctionBegin;
549a2ce50c7SBarry Smith   ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr);
550899cda47SBarry Smith   if (nt != A->cmap.n) {
551899cda47SBarry Smith     SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->cmap.n,nt);
552fbd6ef76SBarry Smith   }
553ca9f406cSSatish Balay   ierr = VecScatterBegin(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
554f830108cSBarry Smith   ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr);
555ca9f406cSSatish Balay   ierr = VecScatterEnd(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
556f830108cSBarry Smith   ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr);
5573a40ed3dSBarry Smith   PetscFunctionReturn(0);
5581eb62cbbSBarry Smith }
5591eb62cbbSBarry Smith 
5604a2ae208SSatish Balay #undef __FUNCT__
5614a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ"
562dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz)
563da3a660dSBarry Smith {
564416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
565dfbe8321SBarry Smith   PetscErrorCode ierr;
5663a40ed3dSBarry Smith 
5673a40ed3dSBarry Smith   PetscFunctionBegin;
568ca9f406cSSatish Balay   ierr = VecScatterBegin(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
569f830108cSBarry Smith   ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr);
570ca9f406cSSatish Balay   ierr = VecScatterEnd(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
571f830108cSBarry Smith   ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr);
5723a40ed3dSBarry Smith   PetscFunctionReturn(0);
573da3a660dSBarry Smith }
574da3a660dSBarry Smith 
5754a2ae208SSatish Balay #undef __FUNCT__
5764a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ"
577dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy)
578da3a660dSBarry Smith {
579416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
580dfbe8321SBarry Smith   PetscErrorCode ierr;
581a5ff213dSBarry Smith   PetscTruth     merged;
582da3a660dSBarry Smith 
5833a40ed3dSBarry Smith   PetscFunctionBegin;
584a5ff213dSBarry Smith   ierr = VecScatterGetMerged(a->Mvctx,&merged);CHKERRQ(ierr);
585da3a660dSBarry Smith   /* do nondiagonal part */
5867c922b88SBarry Smith   ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr);
587a5ff213dSBarry Smith   if (!merged) {
588da3a660dSBarry Smith     /* send it on its way */
589ca9f406cSSatish Balay     ierr = VecScatterBegin(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr);
590da3a660dSBarry Smith     /* do local part */
5917c922b88SBarry Smith     ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr);
592da3a660dSBarry Smith     /* receive remote parts: note this assumes the values are not actually */
593a5ff213dSBarry Smith     /* added in yy until the next line, */
594ca9f406cSSatish Balay     ierr = VecScatterEnd(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr);
595a5ff213dSBarry Smith   } else {
596a5ff213dSBarry Smith     /* do local part */
597a5ff213dSBarry Smith     ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr);
598a5ff213dSBarry Smith     /* send it on its way */
599ca9f406cSSatish Balay     ierr = VecScatterBegin(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr);
600a5ff213dSBarry Smith     /* values actually were received in the Begin() but we need to call this nop */
601ca9f406cSSatish Balay     ierr = VecScatterEnd(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr);
602a5ff213dSBarry Smith   }
6033a40ed3dSBarry Smith   PetscFunctionReturn(0);
604da3a660dSBarry Smith }
605da3a660dSBarry Smith 
606cd0d46ebSvictorle EXTERN_C_BEGIN
607cd0d46ebSvictorle #undef __FUNCT__
6085fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ"
60913c77408SMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscReal tol,PetscTruth *f)
610cd0d46ebSvictorle {
6114f423910Svictorle   MPI_Comm       comm;
612cd0d46ebSvictorle   Mat_MPIAIJ     *Aij = (Mat_MPIAIJ *) Amat->data, *Bij;
61366501d38Svictorle   Mat            Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs;
614cd0d46ebSvictorle   IS             Me,Notme;
6156849ba73SBarry Smith   PetscErrorCode ierr;
616b1d57f15SBarry Smith   PetscInt       M,N,first,last,*notme,i;
617b1d57f15SBarry Smith   PetscMPIInt    size;
618cd0d46ebSvictorle 
619cd0d46ebSvictorle   PetscFunctionBegin;
62042e5f5b4Svictorle 
62142e5f5b4Svictorle   /* Easy test: symmetric diagonal block */
62266501d38Svictorle   Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A;
6235485867bSBarry Smith   ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr);
624cd0d46ebSvictorle   if (!*f) PetscFunctionReturn(0);
6254f423910Svictorle   ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr);
626b1d57f15SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
627b1d57f15SBarry Smith   if (size == 1) PetscFunctionReturn(0);
62842e5f5b4Svictorle 
62942e5f5b4Svictorle   /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */
630cd0d46ebSvictorle   ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr);
631cd0d46ebSvictorle   ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr);
632b1d57f15SBarry Smith   ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),&notme);CHKERRQ(ierr);
633cd0d46ebSvictorle   for (i=0; i<first; i++) notme[i] = i;
634cd0d46ebSvictorle   for (i=last; i<M; i++) notme[i-last+first] = i;
635268466fbSBarry Smith   ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr);
636268466fbSBarry Smith   ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr);
637268466fbSBarry Smith   ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr);
63866501d38Svictorle   Aoff = Aoffs[0];
639268466fbSBarry Smith   ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr);
64066501d38Svictorle   Boff = Boffs[0];
6415485867bSBarry Smith   ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr);
64266501d38Svictorle   ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr);
64366501d38Svictorle   ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr);
64442e5f5b4Svictorle   ierr = ISDestroy(Me);CHKERRQ(ierr);
64542e5f5b4Svictorle   ierr = ISDestroy(Notme);CHKERRQ(ierr);
64642e5f5b4Svictorle 
647cd0d46ebSvictorle   PetscFunctionReturn(0);
648cd0d46ebSvictorle }
649cd0d46ebSvictorle EXTERN_C_END
650cd0d46ebSvictorle 
6514a2ae208SSatish Balay #undef __FUNCT__
6524a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ"
653dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz)
654da3a660dSBarry Smith {
655416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
656dfbe8321SBarry Smith   PetscErrorCode ierr;
657da3a660dSBarry Smith 
6583a40ed3dSBarry Smith   PetscFunctionBegin;
659da3a660dSBarry Smith   /* do nondiagonal part */
6607c922b88SBarry Smith   ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr);
661da3a660dSBarry Smith   /* send it on its way */
662ca9f406cSSatish Balay   ierr = VecScatterBegin(a->Mvctx,a->lvec,zz,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr);
663da3a660dSBarry Smith   /* do local part */
6647c922b88SBarry Smith   ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr);
665a5ff213dSBarry Smith   /* receive remote parts */
666ca9f406cSSatish Balay   ierr = VecScatterEnd(a->Mvctx,a->lvec,zz,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr);
6673a40ed3dSBarry Smith   PetscFunctionReturn(0);
668da3a660dSBarry Smith }
669da3a660dSBarry Smith 
6701eb62cbbSBarry Smith /*
6711eb62cbbSBarry Smith   This only works correctly for square matrices where the subblock A->A is the
6721eb62cbbSBarry Smith    diagonal block
6731eb62cbbSBarry Smith */
6744a2ae208SSatish Balay #undef __FUNCT__
6754a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ"
676dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v)
6771eb62cbbSBarry Smith {
678dfbe8321SBarry Smith   PetscErrorCode ierr;
679416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
6803a40ed3dSBarry Smith 
6813a40ed3dSBarry Smith   PetscFunctionBegin;
682899cda47SBarry Smith   if (A->rmap.N != A->cmap.N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block");
683899cda47SBarry Smith   if (A->rmap.rstart != A->cmap.rstart || A->rmap.rend != A->cmap.rend) {
68429bbc08cSBarry Smith     SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition");
6853a40ed3dSBarry Smith   }
6863a40ed3dSBarry Smith   ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr);
6873a40ed3dSBarry Smith   PetscFunctionReturn(0);
6881eb62cbbSBarry Smith }
6891eb62cbbSBarry Smith 
6904a2ae208SSatish Balay #undef __FUNCT__
6914a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ"
692f4df32b1SMatthew Knepley PetscErrorCode MatScale_MPIAIJ(Mat A,PetscScalar aa)
693052efed2SBarry Smith {
694052efed2SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
695dfbe8321SBarry Smith   PetscErrorCode ierr;
6963a40ed3dSBarry Smith 
6973a40ed3dSBarry Smith   PetscFunctionBegin;
698f4df32b1SMatthew Knepley   ierr = MatScale(a->A,aa);CHKERRQ(ierr);
699f4df32b1SMatthew Knepley   ierr = MatScale(a->B,aa);CHKERRQ(ierr);
7003a40ed3dSBarry Smith   PetscFunctionReturn(0);
701052efed2SBarry Smith }
702052efed2SBarry Smith 
7034a2ae208SSatish Balay #undef __FUNCT__
7044a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ"
705dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat)
7061eb62cbbSBarry Smith {
70744a69424SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
708dfbe8321SBarry Smith   PetscErrorCode ierr;
70983e2fdc7SBarry Smith 
7103a40ed3dSBarry Smith   PetscFunctionBegin;
711aa482453SBarry Smith #if defined(PETSC_USE_LOG)
712899cda47SBarry Smith   PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->rmap.N,mat->cmap.N);
713a5a9c739SBarry Smith #endif
7148798bf22SSatish Balay   ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr);
71578b31e54SBarry Smith   ierr = MatDestroy(aij->A);CHKERRQ(ierr);
71678b31e54SBarry Smith   ierr = MatDestroy(aij->B);CHKERRQ(ierr);
717aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
7189c666560SBarry Smith   if (aij->colmap) {ierr = PetscTableDestroy(aij->colmap);CHKERRQ(ierr);}
719b1fc9764SSatish Balay #else
72005b42c5fSBarry Smith   ierr = PetscFree(aij->colmap);CHKERRQ(ierr);
721b1fc9764SSatish Balay #endif
72205b42c5fSBarry Smith   ierr = PetscFree(aij->garray);CHKERRQ(ierr);
7237c922b88SBarry Smith   if (aij->lvec)   {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);}
7247c922b88SBarry Smith   if (aij->Mvctx)  {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);}
72505b42c5fSBarry Smith   ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);
7268aa348c1SBarry Smith   ierr = PetscFree(aij->ld);CHKERRQ(ierr);
727606d414cSSatish Balay   ierr = PetscFree(aij);CHKERRQ(ierr);
728901853e0SKris Buschelman 
729dbd8c25aSHong Zhang   ierr = PetscObjectChangeTypeName((PetscObject)mat,0);CHKERRQ(ierr);
730901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C","",PETSC_NULL);CHKERRQ(ierr);
731901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C","",PETSC_NULL);CHKERRQ(ierr);
732901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr);
733901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatIsTranspose_C","",PETSC_NULL);CHKERRQ(ierr);
734901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr);
735ff69c46cSKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocationCSR_C","",PETSC_NULL);CHKERRQ(ierr);
736901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C","",PETSC_NULL);CHKERRQ(ierr);
7373a40ed3dSBarry Smith   PetscFunctionReturn(0);
7381eb62cbbSBarry Smith }
739ee50ffe9SBarry Smith 
7404a2ae208SSatish Balay #undef __FUNCT__
7418e2fed03SBarry Smith #define __FUNCT__ "MatView_MPIAIJ_Binary"
742dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_Binary(Mat mat,PetscViewer viewer)
7438e2fed03SBarry Smith {
7448e2fed03SBarry Smith   Mat_MPIAIJ        *aij = (Mat_MPIAIJ*)mat->data;
7458e2fed03SBarry Smith   Mat_SeqAIJ*       A = (Mat_SeqAIJ*)aij->A->data;
7468e2fed03SBarry Smith   Mat_SeqAIJ*       B = (Mat_SeqAIJ*)aij->B->data;
7476849ba73SBarry Smith   PetscErrorCode    ierr;
74832dcc486SBarry Smith   PetscMPIInt       rank,size,tag = ((PetscObject)viewer)->tag;
7496f69ff64SBarry Smith   int               fd;
750a788621eSSatish Balay   PetscInt          nz,header[4],*row_lengths,*range=0,rlen,i;
751899cda47SBarry Smith   PetscInt          nzmax,*column_indices,j,k,col,*garray = aij->garray,cnt,cstart = mat->cmap.rstart,rnz;
7528e2fed03SBarry Smith   PetscScalar       *column_values;
7538e2fed03SBarry Smith 
7548e2fed03SBarry Smith   PetscFunctionBegin;
7557adad957SLisandro Dalcin   ierr = MPI_Comm_rank(((PetscObject)mat)->comm,&rank);CHKERRQ(ierr);
7567adad957SLisandro Dalcin   ierr = MPI_Comm_size(((PetscObject)mat)->comm,&size);CHKERRQ(ierr);
7578e2fed03SBarry Smith   nz   = A->nz + B->nz;
758958c9bccSBarry Smith   if (!rank) {
7598e2fed03SBarry Smith     header[0] = MAT_FILE_COOKIE;
760899cda47SBarry Smith     header[1] = mat->rmap.N;
761899cda47SBarry Smith     header[2] = mat->cmap.N;
7627adad957SLisandro Dalcin     ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,((PetscObject)mat)->comm);CHKERRQ(ierr);
7638e2fed03SBarry Smith     ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr);
7646f69ff64SBarry Smith     ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
7658e2fed03SBarry Smith     /* get largest number of rows any processor has */
766899cda47SBarry Smith     rlen = mat->rmap.n;
767357abbc8SBarry Smith     range = mat->rmap.range;
7688e2fed03SBarry Smith     for (i=1; i<size; i++) {
7698e2fed03SBarry Smith       rlen = PetscMax(rlen,range[i+1] - range[i]);
7708e2fed03SBarry Smith     }
7718e2fed03SBarry Smith   } else {
7727adad957SLisandro Dalcin     ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,((PetscObject)mat)->comm);CHKERRQ(ierr);
773899cda47SBarry Smith     rlen = mat->rmap.n;
7748e2fed03SBarry Smith   }
7758e2fed03SBarry Smith 
7768e2fed03SBarry Smith   /* load up the local row counts */
777b1d57f15SBarry Smith   ierr = PetscMalloc((rlen+1)*sizeof(PetscInt),&row_lengths);CHKERRQ(ierr);
778899cda47SBarry Smith   for (i=0; i<mat->rmap.n; i++) {
7798e2fed03SBarry Smith     row_lengths[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i];
7808e2fed03SBarry Smith   }
7818e2fed03SBarry Smith 
7828e2fed03SBarry Smith   /* store the row lengths to the file */
783958c9bccSBarry Smith   if (!rank) {
7848e2fed03SBarry Smith     MPI_Status status;
785899cda47SBarry Smith     ierr = PetscBinaryWrite(fd,row_lengths,mat->rmap.n,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
7868e2fed03SBarry Smith     for (i=1; i<size; i++) {
7878e2fed03SBarry Smith       rlen = range[i+1] - range[i];
7887adad957SLisandro Dalcin       ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr);
7896f69ff64SBarry Smith       ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
7908e2fed03SBarry Smith     }
7918e2fed03SBarry Smith   } else {
7927adad957SLisandro Dalcin     ierr = MPI_Send(row_lengths,mat->rmap.n,MPIU_INT,0,tag,((PetscObject)mat)->comm);CHKERRQ(ierr);
7938e2fed03SBarry Smith   }
7948e2fed03SBarry Smith   ierr = PetscFree(row_lengths);CHKERRQ(ierr);
7958e2fed03SBarry Smith 
7968e2fed03SBarry Smith   /* load up the local column indices */
7978e2fed03SBarry Smith   nzmax = nz; /* )th processor needs space a largest processor needs */
7987adad957SLisandro Dalcin   ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,((PetscObject)mat)->comm);CHKERRQ(ierr);
799b1d57f15SBarry Smith   ierr = PetscMalloc((nzmax+1)*sizeof(PetscInt),&column_indices);CHKERRQ(ierr);
8008e2fed03SBarry Smith   cnt  = 0;
801899cda47SBarry Smith   for (i=0; i<mat->rmap.n; i++) {
8028e2fed03SBarry Smith     for (j=B->i[i]; j<B->i[i+1]; j++) {
8038e2fed03SBarry Smith       if ( (col = garray[B->j[j]]) > cstart) break;
8048e2fed03SBarry Smith       column_indices[cnt++] = col;
8058e2fed03SBarry Smith     }
8068e2fed03SBarry Smith     for (k=A->i[i]; k<A->i[i+1]; k++) {
8078e2fed03SBarry Smith       column_indices[cnt++] = A->j[k] + cstart;
8088e2fed03SBarry Smith     }
8098e2fed03SBarry Smith     for (; j<B->i[i+1]; j++) {
8108e2fed03SBarry Smith       column_indices[cnt++] = garray[B->j[j]];
8118e2fed03SBarry Smith     }
8128e2fed03SBarry Smith   }
81377431f27SBarry Smith   if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz);
8148e2fed03SBarry Smith 
8158e2fed03SBarry Smith   /* store the column indices to the file */
816958c9bccSBarry Smith   if (!rank) {
8178e2fed03SBarry Smith     MPI_Status status;
8186f69ff64SBarry Smith     ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
8198e2fed03SBarry Smith     for (i=1; i<size; i++) {
8207adad957SLisandro Dalcin       ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr);
82177431f27SBarry Smith       if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax);
8227adad957SLisandro Dalcin       ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr);
8236f69ff64SBarry Smith       ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
8248e2fed03SBarry Smith     }
8258e2fed03SBarry Smith   } else {
8267adad957SLisandro Dalcin     ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,((PetscObject)mat)->comm);CHKERRQ(ierr);
8277adad957SLisandro Dalcin     ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,((PetscObject)mat)->comm);CHKERRQ(ierr);
8288e2fed03SBarry Smith   }
8298e2fed03SBarry Smith   ierr = PetscFree(column_indices);CHKERRQ(ierr);
8308e2fed03SBarry Smith 
8318e2fed03SBarry Smith   /* load up the local column values */
8328e2fed03SBarry Smith   ierr = PetscMalloc((nzmax+1)*sizeof(PetscScalar),&column_values);CHKERRQ(ierr);
8338e2fed03SBarry Smith   cnt  = 0;
834899cda47SBarry Smith   for (i=0; i<mat->rmap.n; i++) {
8358e2fed03SBarry Smith     for (j=B->i[i]; j<B->i[i+1]; j++) {
8368e2fed03SBarry Smith       if ( garray[B->j[j]] > cstart) break;
8378e2fed03SBarry Smith       column_values[cnt++] = B->a[j];
8388e2fed03SBarry Smith     }
8398e2fed03SBarry Smith     for (k=A->i[i]; k<A->i[i+1]; k++) {
8408e2fed03SBarry Smith       column_values[cnt++] = A->a[k];
8418e2fed03SBarry Smith     }
8428e2fed03SBarry Smith     for (; j<B->i[i+1]; j++) {
8438e2fed03SBarry Smith       column_values[cnt++] = B->a[j];
8448e2fed03SBarry Smith     }
8458e2fed03SBarry Smith   }
84677431f27SBarry Smith   if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz);
8478e2fed03SBarry Smith 
8488e2fed03SBarry Smith   /* store the column values to the file */
849958c9bccSBarry Smith   if (!rank) {
8508e2fed03SBarry Smith     MPI_Status status;
8516f69ff64SBarry Smith     ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr);
8528e2fed03SBarry Smith     for (i=1; i<size; i++) {
8537adad957SLisandro Dalcin       ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr);
85477431f27SBarry Smith       if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax);
8557adad957SLisandro Dalcin       ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr);
8566f69ff64SBarry Smith       ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr);
8578e2fed03SBarry Smith     }
8588e2fed03SBarry Smith   } else {
8597adad957SLisandro Dalcin     ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,((PetscObject)mat)->comm);CHKERRQ(ierr);
8607adad957SLisandro Dalcin     ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,((PetscObject)mat)->comm);CHKERRQ(ierr);
8618e2fed03SBarry Smith   }
8628e2fed03SBarry Smith   ierr = PetscFree(column_values);CHKERRQ(ierr);
8638e2fed03SBarry Smith   PetscFunctionReturn(0);
8648e2fed03SBarry Smith }
8658e2fed03SBarry Smith 
8668e2fed03SBarry Smith #undef __FUNCT__
8674a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket"
868dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer)
869416022c9SBarry Smith {
87044a69424SLois Curfman McInnes   Mat_MPIAIJ        *aij = (Mat_MPIAIJ*)mat->data;
871dfbe8321SBarry Smith   PetscErrorCode    ierr;
87232dcc486SBarry Smith   PetscMPIInt       rank = aij->rank,size = aij->size;
873d38fa0fbSBarry Smith   PetscTruth        isdraw,iascii,isbinary;
874b0a32e0cSBarry Smith   PetscViewer       sviewer;
875f3ef73ceSBarry Smith   PetscViewerFormat format;
876416022c9SBarry Smith 
8773a40ed3dSBarry Smith   PetscFunctionBegin;
878fb9695e5SSatish Balay   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr);
87932077d6dSBarry Smith   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr);
8808e2fed03SBarry Smith   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr);
88132077d6dSBarry Smith   if (iascii) {
882b0a32e0cSBarry Smith     ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr);
883456192e2SBarry Smith     if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) {
8844e220ebcSLois Curfman McInnes       MatInfo    info;
885923f20ffSKris Buschelman       PetscTruth inodes;
886923f20ffSKris Buschelman 
8877adad957SLisandro Dalcin       ierr = MPI_Comm_rank(((PetscObject)mat)->comm,&rank);CHKERRQ(ierr);
888888f2ed8SSatish Balay       ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr);
889923f20ffSKris Buschelman       ierr = MatInodeGetInodeSizes(aij->A,PETSC_NULL,(PetscInt **)&inodes,PETSC_NULL);CHKERRQ(ierr);
890923f20ffSKris Buschelman       if (!inodes) {
89177431f27SBarry Smith         ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, not using I-node routines\n",
892899cda47SBarry Smith 					      rank,mat->rmap.n,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr);
8936831982aSBarry Smith       } else {
89477431f27SBarry Smith         ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, using I-node routines\n",
895899cda47SBarry Smith 		    rank,mat->rmap.n,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr);
8966831982aSBarry Smith       }
897888f2ed8SSatish Balay       ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr);
89877431f27SBarry Smith       ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr);
899888f2ed8SSatish Balay       ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr);
90077431f27SBarry Smith       ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr);
901b0a32e0cSBarry Smith       ierr = PetscViewerFlush(viewer);CHKERRQ(ierr);
90207d81ca4SBarry Smith       ierr = PetscViewerASCIIPrintf(viewer,"Information on VecScatter used in matrix-vector product: \n");CHKERRQ(ierr);
903a40aa06bSLois Curfman McInnes       ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr);
9043a40ed3dSBarry Smith       PetscFunctionReturn(0);
905fb9695e5SSatish Balay     } else if (format == PETSC_VIEWER_ASCII_INFO) {
906923f20ffSKris Buschelman       PetscInt   inodecount,inodelimit,*inodes;
907923f20ffSKris Buschelman       ierr = MatInodeGetInodeSizes(aij->A,&inodecount,&inodes,&inodelimit);CHKERRQ(ierr);
908923f20ffSKris Buschelman       if (inodes) {
909923f20ffSKris Buschelman         ierr = PetscViewerASCIIPrintf(viewer,"using I-node (on process 0) routines: found %D nodes, limit used is %D\n",inodecount,inodelimit);CHKERRQ(ierr);
910d38fa0fbSBarry Smith       } else {
911d38fa0fbSBarry Smith         ierr = PetscViewerASCIIPrintf(viewer,"not using I-node (on process 0) routines\n");CHKERRQ(ierr);
912d38fa0fbSBarry Smith       }
9133a40ed3dSBarry Smith       PetscFunctionReturn(0);
9144aedb280SBarry Smith     } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) {
9154aedb280SBarry Smith       PetscFunctionReturn(0);
91608480c60SBarry Smith     }
9178e2fed03SBarry Smith   } else if (isbinary) {
9188e2fed03SBarry Smith     if (size == 1) {
9197adad957SLisandro Dalcin       ierr = PetscObjectSetName((PetscObject)aij->A,((PetscObject)mat)->name);CHKERRQ(ierr);
9208e2fed03SBarry Smith       ierr = MatView(aij->A,viewer);CHKERRQ(ierr);
9218e2fed03SBarry Smith     } else {
9228e2fed03SBarry Smith       ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr);
9238e2fed03SBarry Smith     }
9248e2fed03SBarry Smith     PetscFunctionReturn(0);
9250f5bd95cSBarry Smith   } else if (isdraw) {
926b0a32e0cSBarry Smith     PetscDraw  draw;
92719bcc07fSBarry Smith     PetscTruth isnull;
928b0a32e0cSBarry Smith     ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr);
929b0a32e0cSBarry Smith     ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0);
93019bcc07fSBarry Smith   }
93119bcc07fSBarry Smith 
93217699dbbSLois Curfman McInnes   if (size == 1) {
9337adad957SLisandro Dalcin     ierr = PetscObjectSetName((PetscObject)aij->A,((PetscObject)mat)->name);CHKERRQ(ierr);
93478b31e54SBarry Smith     ierr = MatView(aij->A,viewer);CHKERRQ(ierr);
9353a40ed3dSBarry Smith   } else {
93695373324SBarry Smith     /* assemble the entire matrix onto first processor. */
93795373324SBarry Smith     Mat         A;
938ec8511deSBarry Smith     Mat_SeqAIJ  *Aloc;
939899cda47SBarry Smith     PetscInt    M = mat->rmap.N,N = mat->cmap.N,m,*ai,*aj,row,*cols,i,*ct;
94087828ca2SBarry Smith     PetscScalar *a;
9412ee70a88SLois Curfman McInnes 
942*0805154bSBarry Smith     if (mat->rmap.N > 1024) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"ASCII matrix output not allowed for matrices with more than 512 rows, use binary format instead");
943*0805154bSBarry Smith 
9447adad957SLisandro Dalcin     ierr = MatCreate(((PetscObject)mat)->comm,&A);CHKERRQ(ierr);
94517699dbbSLois Curfman McInnes     if (!rank) {
946f69a0ea3SMatthew Knepley       ierr = MatSetSizes(A,M,N,M,N);CHKERRQ(ierr);
9473a40ed3dSBarry Smith     } else {
948f69a0ea3SMatthew Knepley       ierr = MatSetSizes(A,0,0,M,N);CHKERRQ(ierr);
94995373324SBarry Smith     }
950f204ca49SKris Buschelman     /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */
951f204ca49SKris Buschelman     ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr);
952f204ca49SKris Buschelman     ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr);
95352e6d16bSBarry Smith     ierr = PetscLogObjectParent(mat,A);CHKERRQ(ierr);
954416022c9SBarry Smith 
95595373324SBarry Smith     /* copy over the A part */
956ec8511deSBarry Smith     Aloc = (Mat_SeqAIJ*)aij->A->data;
957899cda47SBarry Smith     m = aij->A->rmap.n; ai = Aloc->i; aj = Aloc->j; a = Aloc->a;
958899cda47SBarry Smith     row = mat->rmap.rstart;
959899cda47SBarry Smith     for (i=0; i<ai[m]; i++) {aj[i] += mat->cmap.rstart ;}
96095373324SBarry Smith     for (i=0; i<m; i++) {
961416022c9SBarry Smith       ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr);
96295373324SBarry Smith       row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i];
96395373324SBarry Smith     }
9642ee70a88SLois Curfman McInnes     aj = Aloc->j;
965899cda47SBarry Smith     for (i=0; i<ai[m]; i++) {aj[i] -= mat->cmap.rstart;}
96695373324SBarry Smith 
96795373324SBarry Smith     /* copy over the B part */
968ec8511deSBarry Smith     Aloc = (Mat_SeqAIJ*)aij->B->data;
969899cda47SBarry Smith     m    = aij->B->rmap.n;  ai = Aloc->i; aj = Aloc->j; a = Aloc->a;
970899cda47SBarry Smith     row  = mat->rmap.rstart;
971b1d57f15SBarry Smith     ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr);
972b0a32e0cSBarry Smith     ct   = cols;
973bfec09a0SHong Zhang     for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];}
97495373324SBarry Smith     for (i=0; i<m; i++) {
975416022c9SBarry Smith       ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr);
97695373324SBarry Smith       row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i];
97795373324SBarry Smith     }
978606d414cSSatish Balay     ierr = PetscFree(ct);CHKERRQ(ierr);
9796d4a8577SBarry Smith     ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
9806d4a8577SBarry Smith     ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
98155843e3eSBarry Smith     /*
98255843e3eSBarry Smith        Everyone has to call to draw the matrix since the graphics waits are
983b0a32e0cSBarry Smith        synchronized across all processors that share the PetscDraw object
98455843e3eSBarry Smith     */
985b0a32e0cSBarry Smith     ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr);
986e03a110bSBarry Smith     if (!rank) {
9877adad957SLisandro Dalcin       ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,((PetscObject)mat)->name);CHKERRQ(ierr);
9886831982aSBarry Smith       ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr);
98995373324SBarry Smith     }
990b0a32e0cSBarry Smith     ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr);
99178b31e54SBarry Smith     ierr = MatDestroy(A);CHKERRQ(ierr);
99295373324SBarry Smith   }
9933a40ed3dSBarry Smith   PetscFunctionReturn(0);
9941eb62cbbSBarry Smith }
9951eb62cbbSBarry Smith 
9964a2ae208SSatish Balay #undef __FUNCT__
9974a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ"
998dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer)
999416022c9SBarry Smith {
1000dfbe8321SBarry Smith   PetscErrorCode ierr;
100132077d6dSBarry Smith   PetscTruth     iascii,isdraw,issocket,isbinary;
1002416022c9SBarry Smith 
10033a40ed3dSBarry Smith   PetscFunctionBegin;
100432077d6dSBarry Smith   ierr  = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr);
1005fb9695e5SSatish Balay   ierr  = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr);
1006fb9695e5SSatish Balay   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr);
1007b0a32e0cSBarry Smith   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr);
100832077d6dSBarry Smith   if (iascii || isdraw || isbinary || issocket) {
10097b2a1423SBarry Smith     ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr);
10105cd90555SBarry Smith   } else {
101179a5c55eSBarry Smith     SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name);
1012416022c9SBarry Smith   }
10133a40ed3dSBarry Smith   PetscFunctionReturn(0);
1014416022c9SBarry Smith }
1015416022c9SBarry Smith 
10164a2ae208SSatish Balay #undef __FUNCT__
10174a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ"
1018b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx)
10198a729477SBarry Smith {
102044a69424SLois Curfman McInnes   Mat_MPIAIJ     *mat = (Mat_MPIAIJ*)matin->data;
1021dfbe8321SBarry Smith   PetscErrorCode ierr;
1022c14dc6b6SHong Zhang   Vec            bb1;
10238a729477SBarry Smith 
10243a40ed3dSBarry Smith   PetscFunctionBegin;
1025c14dc6b6SHong Zhang   ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr);
10262798e883SHong Zhang 
1027c16cb8f2SBarry Smith   if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){
1028da3a660dSBarry Smith     if (flag & SOR_ZERO_INITIAL_GUESS) {
1029bd3bf7d3SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr);
10302798e883SHong Zhang       its--;
1031da3a660dSBarry Smith     }
10322798e883SHong Zhang 
10332798e883SHong Zhang     while (its--) {
1034ca9f406cSSatish Balay       ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
1035ca9f406cSSatish Balay       ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
10362798e883SHong Zhang 
1037c14dc6b6SHong Zhang       /* update rhs: bb1 = bb - B*x */
1038efb30889SBarry Smith       ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr);
1039c14dc6b6SHong Zhang       ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr);
10402798e883SHong Zhang 
1041c14dc6b6SHong Zhang       /* local sweep */
104271f1c65dSBarry Smith       ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx);CHKERRQ(ierr);
10432798e883SHong Zhang     }
10443a40ed3dSBarry Smith   } else if (flag & SOR_LOCAL_FORWARD_SWEEP){
1045da3a660dSBarry Smith     if (flag & SOR_ZERO_INITIAL_GUESS) {
1046c14dc6b6SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr);
10472798e883SHong Zhang       its--;
1048da3a660dSBarry Smith     }
10492798e883SHong Zhang     while (its--) {
1050ca9f406cSSatish Balay       ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
1051ca9f406cSSatish Balay       ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
10522798e883SHong Zhang 
1053c14dc6b6SHong Zhang       /* update rhs: bb1 = bb - B*x */
1054efb30889SBarry Smith       ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr);
1055c14dc6b6SHong Zhang       ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr);
1056c14dc6b6SHong Zhang 
1057c14dc6b6SHong Zhang       /* local sweep */
105871f1c65dSBarry Smith       ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr);
10592798e883SHong Zhang     }
10603a40ed3dSBarry Smith   } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){
1061da3a660dSBarry Smith     if (flag & SOR_ZERO_INITIAL_GUESS) {
1062c14dc6b6SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr);
10632798e883SHong Zhang       its--;
1064da3a660dSBarry Smith     }
10652798e883SHong Zhang     while (its--) {
1066ca9f406cSSatish Balay       ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
1067ca9f406cSSatish Balay       ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
10682798e883SHong Zhang 
1069c14dc6b6SHong Zhang       /* update rhs: bb1 = bb - B*x */
1070efb30889SBarry Smith       ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr);
1071c14dc6b6SHong Zhang       ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr);
10722798e883SHong Zhang 
1073c14dc6b6SHong Zhang       /* local sweep */
107471f1c65dSBarry Smith       ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr);
10752798e883SHong Zhang     }
10763a40ed3dSBarry Smith   } else {
107729bbc08cSBarry Smith     SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported");
1078c16cb8f2SBarry Smith   }
1079c14dc6b6SHong Zhang 
1080c14dc6b6SHong Zhang   ierr = VecDestroy(bb1);CHKERRQ(ierr);
10813a40ed3dSBarry Smith   PetscFunctionReturn(0);
10828a729477SBarry Smith }
1083a66be287SLois Curfman McInnes 
10844a2ae208SSatish Balay #undef __FUNCT__
108542e855d1Svictor #define __FUNCT__ "MatPermute_MPIAIJ"
108642e855d1Svictor PetscErrorCode MatPermute_MPIAIJ(Mat A,IS rowp,IS colp,Mat *B)
108742e855d1Svictor {
108842e855d1Svictor   MPI_Comm       comm,pcomm;
108942e855d1Svictor   PetscInt       first,local_size,nrows,*rows;
109042e855d1Svictor   int            ntids;
109142e855d1Svictor   IS             crowp,growp,irowp,lrowp,lcolp,icolp;
109242e855d1Svictor   PetscErrorCode ierr;
109342e855d1Svictor 
109442e855d1Svictor   PetscFunctionBegin;
109542e855d1Svictor   ierr = PetscObjectGetComm((PetscObject)A,&comm); CHKERRQ(ierr);
109642e855d1Svictor   /* make a collective version of 'rowp' */
109742e855d1Svictor   ierr = PetscObjectGetComm((PetscObject)rowp,&pcomm); CHKERRQ(ierr);
109842e855d1Svictor   if (pcomm==comm) {
109942e855d1Svictor     crowp = rowp;
110042e855d1Svictor   } else {
110142e855d1Svictor     ierr = ISGetSize(rowp,&nrows); CHKERRQ(ierr);
110242e855d1Svictor     ierr = ISGetIndices(rowp,&rows); CHKERRQ(ierr);
110342e855d1Svictor     ierr = ISCreateGeneral(comm,nrows,rows,&crowp); CHKERRQ(ierr);
110442e855d1Svictor     ierr = ISRestoreIndices(rowp,&rows); CHKERRQ(ierr);
110542e855d1Svictor   }
110642e855d1Svictor   /* collect the global row permutation and invert it */
110742e855d1Svictor   ierr = ISAllGather(crowp,&growp); CHKERRQ(ierr);
110842e855d1Svictor   ierr = ISSetPermutation(growp); CHKERRQ(ierr);
110942e855d1Svictor   if (pcomm!=comm) {
111042e855d1Svictor     ierr = ISDestroy(crowp); CHKERRQ(ierr);
111142e855d1Svictor   }
111242e855d1Svictor   ierr = ISInvertPermutation(growp,PETSC_DECIDE,&irowp);CHKERRQ(ierr);
111342e855d1Svictor   /* get the local target indices */
111442e855d1Svictor   ierr = MatGetOwnershipRange(A,&first,PETSC_NULL); CHKERRQ(ierr);
111542e855d1Svictor   ierr = MatGetLocalSize(A,&local_size,PETSC_NULL); CHKERRQ(ierr);
111642e855d1Svictor   ierr = ISGetIndices(irowp,&rows); CHKERRQ(ierr);
111742e855d1Svictor   ierr = ISCreateGeneral(MPI_COMM_SELF,local_size,rows+first,&lrowp); CHKERRQ(ierr);
111842e855d1Svictor   ierr = ISRestoreIndices(irowp,&rows); CHKERRQ(ierr);
111942e855d1Svictor   ierr = ISDestroy(irowp); CHKERRQ(ierr);
112042e855d1Svictor   /* the column permutation is so much easier;
112142e855d1Svictor      make a local version of 'colp' and invert it */
112242e855d1Svictor   ierr = PetscObjectGetComm((PetscObject)colp,&pcomm); CHKERRQ(ierr);
112342e855d1Svictor   ierr = MPI_Comm_size(pcomm,&ntids); CHKERRQ(ierr);
112442e855d1Svictor   if (ntids==1) {
112542e855d1Svictor     lcolp = colp;
112642e855d1Svictor   } else {
112742e855d1Svictor     ierr = ISGetSize(colp,&nrows); CHKERRQ(ierr);
112842e855d1Svictor     ierr = ISGetIndices(colp,&rows); CHKERRQ(ierr);
112942e855d1Svictor     ierr = ISCreateGeneral(MPI_COMM_SELF,nrows,rows,&lcolp); CHKERRQ(ierr);
113042e855d1Svictor   }
113142e855d1Svictor   ierr = ISInvertPermutation(lcolp,PETSC_DECIDE,&icolp); CHKERRQ(ierr);
113242e855d1Svictor   ierr = ISSetPermutation(lcolp); CHKERRQ(ierr);
113342e855d1Svictor   if (ntids>1) {
113442e855d1Svictor     ierr = ISRestoreIndices(colp,&rows); CHKERRQ(ierr);
113542e855d1Svictor     ierr = ISDestroy(lcolp); CHKERRQ(ierr);
113642e855d1Svictor   }
113742e855d1Svictor   /* now we just get the submatrix */
113842e855d1Svictor   ierr = MatGetSubMatrix(A,lrowp,icolp,local_size,MAT_INITIAL_MATRIX,B); CHKERRQ(ierr);
113942e855d1Svictor   /* clean up */
114042e855d1Svictor   ierr = ISDestroy(lrowp); CHKERRQ(ierr);
114142e855d1Svictor   ierr = ISDestroy(icolp); CHKERRQ(ierr);
114242e855d1Svictor   PetscFunctionReturn(0);
114342e855d1Svictor }
114442e855d1Svictor 
114542e855d1Svictor #undef __FUNCT__
11464a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ"
1147dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info)
1148a66be287SLois Curfman McInnes {
1149a66be287SLois Curfman McInnes   Mat_MPIAIJ     *mat = (Mat_MPIAIJ*)matin->data;
1150a66be287SLois Curfman McInnes   Mat            A = mat->A,B = mat->B;
1151dfbe8321SBarry Smith   PetscErrorCode ierr;
1152329f5518SBarry Smith   PetscReal      isend[5],irecv[5];
1153a66be287SLois Curfman McInnes 
11543a40ed3dSBarry Smith   PetscFunctionBegin;
11554e220ebcSLois Curfman McInnes   info->block_size     = 1.0;
11564e220ebcSLois Curfman McInnes   ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr);
11574e220ebcSLois Curfman McInnes   isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded;
11584e220ebcSLois Curfman McInnes   isend[3] = info->memory;  isend[4] = info->mallocs;
11594e220ebcSLois Curfman McInnes   ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr);
11604e220ebcSLois Curfman McInnes   isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded;
11614e220ebcSLois Curfman McInnes   isend[3] += info->memory;  isend[4] += info->mallocs;
1162a66be287SLois Curfman McInnes   if (flag == MAT_LOCAL) {
11634e220ebcSLois Curfman McInnes     info->nz_used      = isend[0];
11644e220ebcSLois Curfman McInnes     info->nz_allocated = isend[1];
11654e220ebcSLois Curfman McInnes     info->nz_unneeded  = isend[2];
11664e220ebcSLois Curfman McInnes     info->memory       = isend[3];
11674e220ebcSLois Curfman McInnes     info->mallocs      = isend[4];
1168a66be287SLois Curfman McInnes   } else if (flag == MAT_GLOBAL_MAX) {
11697adad957SLisandro Dalcin     ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,((PetscObject)matin)->comm);CHKERRQ(ierr);
11704e220ebcSLois Curfman McInnes     info->nz_used      = irecv[0];
11714e220ebcSLois Curfman McInnes     info->nz_allocated = irecv[1];
11724e220ebcSLois Curfman McInnes     info->nz_unneeded  = irecv[2];
11734e220ebcSLois Curfman McInnes     info->memory       = irecv[3];
11744e220ebcSLois Curfman McInnes     info->mallocs      = irecv[4];
1175a66be287SLois Curfman McInnes   } else if (flag == MAT_GLOBAL_SUM) {
11767adad957SLisandro Dalcin     ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,((PetscObject)matin)->comm);CHKERRQ(ierr);
11774e220ebcSLois Curfman McInnes     info->nz_used      = irecv[0];
11784e220ebcSLois Curfman McInnes     info->nz_allocated = irecv[1];
11794e220ebcSLois Curfman McInnes     info->nz_unneeded  = irecv[2];
11804e220ebcSLois Curfman McInnes     info->memory       = irecv[3];
11814e220ebcSLois Curfman McInnes     info->mallocs      = irecv[4];
1182a66be287SLois Curfman McInnes   }
11834e220ebcSLois Curfman McInnes   info->fill_ratio_given  = 0; /* no parallel LU/ILU/Cholesky */
11844e220ebcSLois Curfman McInnes   info->fill_ratio_needed = 0;
11854e220ebcSLois Curfman McInnes   info->factor_mallocs    = 0;
1186899cda47SBarry Smith   info->rows_global       = (double)matin->rmap.N;
1187899cda47SBarry Smith   info->columns_global    = (double)matin->cmap.N;
1188899cda47SBarry Smith   info->rows_local        = (double)matin->rmap.n;
1189899cda47SBarry Smith   info->columns_local     = (double)matin->cmap.N;
11904e220ebcSLois Curfman McInnes 
11913a40ed3dSBarry Smith   PetscFunctionReturn(0);
1192a66be287SLois Curfman McInnes }
1193a66be287SLois Curfman McInnes 
11944a2ae208SSatish Balay #undef __FUNCT__
11954a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ"
11964e0d8c25SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op,PetscTruth flg)
1197c74985f6SBarry Smith {
1198c0bbcb79SLois Curfman McInnes   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
1199dfbe8321SBarry Smith   PetscErrorCode ierr;
1200c74985f6SBarry Smith 
12013a40ed3dSBarry Smith   PetscFunctionBegin;
120212c028f9SKris Buschelman   switch (op) {
1203512a5fc5SBarry Smith   case MAT_NEW_NONZERO_LOCATIONS:
120412c028f9SKris Buschelman   case MAT_NEW_NONZERO_ALLOCATION_ERR:
120512c028f9SKris Buschelman   case MAT_KEEP_ZEROED_ROWS:
120612c028f9SKris Buschelman   case MAT_NEW_NONZERO_LOCATION_ERR:
120712c028f9SKris Buschelman   case MAT_USE_INODES:
120812c028f9SKris Buschelman   case MAT_IGNORE_ZERO_ENTRIES:
12094e0d8c25SBarry Smith     ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr);
12104e0d8c25SBarry Smith     ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr);
121112c028f9SKris Buschelman     break;
121212c028f9SKris Buschelman   case MAT_ROW_ORIENTED:
12134e0d8c25SBarry Smith     a->roworiented = flg;
12144e0d8c25SBarry Smith     ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr);
12154e0d8c25SBarry Smith     ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr);
121612c028f9SKris Buschelman     break;
12174e0d8c25SBarry Smith   case MAT_NEW_DIAGONALS:
1218290bbb0aSBarry Smith     ierr = PetscInfo1(A,"Option %s ignored\n",MatOptions[op]);CHKERRQ(ierr);
121912c028f9SKris Buschelman     break;
122012c028f9SKris Buschelman   case MAT_IGNORE_OFF_PROC_ENTRIES:
12217c922b88SBarry Smith     a->donotstash = PETSC_TRUE;
122212c028f9SKris Buschelman     break;
122377e54ba9SKris Buschelman   case MAT_SYMMETRIC:
12244e0d8c25SBarry Smith     ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr);
122525f421beSHong Zhang     break;
122677e54ba9SKris Buschelman   case MAT_STRUCTURALLY_SYMMETRIC:
1227bf108f30SBarry Smith   case MAT_HERMITIAN:
1228bf108f30SBarry Smith   case MAT_SYMMETRY_ETERNAL:
12294e0d8c25SBarry Smith     ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr);
123077e54ba9SKris Buschelman     break;
123112c028f9SKris Buschelman   default:
1232ad86a440SBarry Smith     SETERRQ1(PETSC_ERR_SUP,"unknown option %d",op);
12333a40ed3dSBarry Smith   }
12343a40ed3dSBarry Smith   PetscFunctionReturn(0);
1235c74985f6SBarry Smith }
1236c74985f6SBarry Smith 
12374a2ae208SSatish Balay #undef __FUNCT__
12384a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ"
1239b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
124039e00950SLois Curfman McInnes {
1241154123eaSLois Curfman McInnes   Mat_MPIAIJ     *mat = (Mat_MPIAIJ*)matin->data;
124287828ca2SBarry Smith   PetscScalar    *vworkA,*vworkB,**pvA,**pvB,*v_p;
12436849ba73SBarry Smith   PetscErrorCode ierr;
1244899cda47SBarry Smith   PetscInt       i,*cworkA,*cworkB,**pcA,**pcB,cstart = matin->cmap.rstart;
1245899cda47SBarry Smith   PetscInt       nztot,nzA,nzB,lrow,rstart = matin->rmap.rstart,rend = matin->rmap.rend;
1246b1d57f15SBarry Smith   PetscInt       *cmap,*idx_p;
124739e00950SLois Curfman McInnes 
12483a40ed3dSBarry Smith   PetscFunctionBegin;
1249abc0a331SBarry Smith   if (mat->getrowactive) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active");
12507a0afa10SBarry Smith   mat->getrowactive = PETSC_TRUE;
12517a0afa10SBarry Smith 
125270f0671dSBarry Smith   if (!mat->rowvalues && (idx || v)) {
12537a0afa10SBarry Smith     /*
12547a0afa10SBarry Smith         allocate enough space to hold information from the longest row.
12557a0afa10SBarry Smith     */
12567a0afa10SBarry Smith     Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data;
1257b1d57f15SBarry Smith     PetscInt     max = 1,tmp;
1258899cda47SBarry Smith     for (i=0; i<matin->rmap.n; i++) {
12597a0afa10SBarry Smith       tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i];
12607a0afa10SBarry Smith       if (max < tmp) { max = tmp; }
12617a0afa10SBarry Smith     }
1262b1d57f15SBarry Smith     ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr);
1263b1d57f15SBarry Smith     mat->rowindices = (PetscInt*)(mat->rowvalues + max);
12647a0afa10SBarry Smith   }
12657a0afa10SBarry Smith 
126629bbc08cSBarry Smith   if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows")
1267abc0e9e4SLois Curfman McInnes   lrow = row - rstart;
126839e00950SLois Curfman McInnes 
1269154123eaSLois Curfman McInnes   pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB;
1270154123eaSLois Curfman McInnes   if (!v)   {pvA = 0; pvB = 0;}
1271154123eaSLois Curfman McInnes   if (!idx) {pcA = 0; if (!v) pcB = 0;}
1272f830108cSBarry Smith   ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr);
1273f830108cSBarry Smith   ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr);
1274154123eaSLois Curfman McInnes   nztot = nzA + nzB;
1275154123eaSLois Curfman McInnes 
127670f0671dSBarry Smith   cmap  = mat->garray;
1277154123eaSLois Curfman McInnes   if (v  || idx) {
1278154123eaSLois Curfman McInnes     if (nztot) {
1279154123eaSLois Curfman McInnes       /* Sort by increasing column numbers, assuming A and B already sorted */
1280b1d57f15SBarry Smith       PetscInt imark = -1;
1281154123eaSLois Curfman McInnes       if (v) {
128270f0671dSBarry Smith         *v = v_p = mat->rowvalues;
128339e00950SLois Curfman McInnes         for (i=0; i<nzB; i++) {
128470f0671dSBarry Smith           if (cmap[cworkB[i]] < cstart)   v_p[i] = vworkB[i];
1285154123eaSLois Curfman McInnes           else break;
1286154123eaSLois Curfman McInnes         }
1287154123eaSLois Curfman McInnes         imark = i;
128870f0671dSBarry Smith         for (i=0; i<nzA; i++)     v_p[imark+i] = vworkA[i];
128970f0671dSBarry Smith         for (i=imark; i<nzB; i++) v_p[nzA+i]   = vworkB[i];
1290154123eaSLois Curfman McInnes       }
1291154123eaSLois Curfman McInnes       if (idx) {
129270f0671dSBarry Smith         *idx = idx_p = mat->rowindices;
129370f0671dSBarry Smith         if (imark > -1) {
129470f0671dSBarry Smith           for (i=0; i<imark; i++) {
129570f0671dSBarry Smith             idx_p[i] = cmap[cworkB[i]];
129670f0671dSBarry Smith           }
129770f0671dSBarry Smith         } else {
1298154123eaSLois Curfman McInnes           for (i=0; i<nzB; i++) {
129970f0671dSBarry Smith             if (cmap[cworkB[i]] < cstart)   idx_p[i] = cmap[cworkB[i]];
1300154123eaSLois Curfman McInnes             else break;
1301154123eaSLois Curfman McInnes           }
1302154123eaSLois Curfman McInnes           imark = i;
130370f0671dSBarry Smith         }
130470f0671dSBarry Smith         for (i=0; i<nzA; i++)     idx_p[imark+i] = cstart + cworkA[i];
130570f0671dSBarry Smith         for (i=imark; i<nzB; i++) idx_p[nzA+i]   = cmap[cworkB[i]];
130639e00950SLois Curfman McInnes       }
13073f97c4b0SBarry Smith     } else {
13081ca473b0SSatish Balay       if (idx) *idx = 0;
13091ca473b0SSatish Balay       if (v)   *v   = 0;
13101ca473b0SSatish Balay     }
1311154123eaSLois Curfman McInnes   }
131239e00950SLois Curfman McInnes   *nz = nztot;
1313f830108cSBarry Smith   ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr);
1314f830108cSBarry Smith   ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr);
13153a40ed3dSBarry Smith   PetscFunctionReturn(0);
131639e00950SLois Curfman McInnes }
131739e00950SLois Curfman McInnes 
13184a2ae208SSatish Balay #undef __FUNCT__
13194a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ"
1320b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
132139e00950SLois Curfman McInnes {
13227a0afa10SBarry Smith   Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data;
13233a40ed3dSBarry Smith 
13243a40ed3dSBarry Smith   PetscFunctionBegin;
1325abc0a331SBarry Smith   if (!aij->getrowactive) {
1326abc0a331SBarry Smith     SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow() must be called first");
13277a0afa10SBarry Smith   }
13287a0afa10SBarry Smith   aij->getrowactive = PETSC_FALSE;
13293a40ed3dSBarry Smith   PetscFunctionReturn(0);
133039e00950SLois Curfman McInnes }
133139e00950SLois Curfman McInnes 
13324a2ae208SSatish Balay #undef __FUNCT__
13334a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ"
1334dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm)
1335855ac2c5SLois Curfman McInnes {
1336855ac2c5SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
1337ec8511deSBarry Smith   Mat_SeqAIJ     *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data;
1338dfbe8321SBarry Smith   PetscErrorCode ierr;
1339899cda47SBarry Smith   PetscInt       i,j,cstart = mat->cmap.rstart;
1340329f5518SBarry Smith   PetscReal      sum = 0.0;
134187828ca2SBarry Smith   PetscScalar    *v;
134204ca555eSLois Curfman McInnes 
13433a40ed3dSBarry Smith   PetscFunctionBegin;
134417699dbbSLois Curfman McInnes   if (aij->size == 1) {
134514183eadSLois Curfman McInnes     ierr =  MatNorm(aij->A,type,norm);CHKERRQ(ierr);
134637fa93a5SLois Curfman McInnes   } else {
134704ca555eSLois Curfman McInnes     if (type == NORM_FROBENIUS) {
134804ca555eSLois Curfman McInnes       v = amat->a;
134904ca555eSLois Curfman McInnes       for (i=0; i<amat->nz; i++) {
1350aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX)
1351329f5518SBarry Smith         sum += PetscRealPart(PetscConj(*v)*(*v)); v++;
135204ca555eSLois Curfman McInnes #else
135304ca555eSLois Curfman McInnes         sum += (*v)*(*v); v++;
135404ca555eSLois Curfman McInnes #endif
135504ca555eSLois Curfman McInnes       }
135604ca555eSLois Curfman McInnes       v = bmat->a;
135704ca555eSLois Curfman McInnes       for (i=0; i<bmat->nz; i++) {
1358aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX)
1359329f5518SBarry Smith         sum += PetscRealPart(PetscConj(*v)*(*v)); v++;
136004ca555eSLois Curfman McInnes #else
136104ca555eSLois Curfman McInnes         sum += (*v)*(*v); v++;
136204ca555eSLois Curfman McInnes #endif
136304ca555eSLois Curfman McInnes       }
13647adad957SLisandro Dalcin       ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,((PetscObject)mat)->comm);CHKERRQ(ierr);
136504ca555eSLois Curfman McInnes       *norm = sqrt(*norm);
13663a40ed3dSBarry Smith     } else if (type == NORM_1) { /* max column norm */
1367329f5518SBarry Smith       PetscReal *tmp,*tmp2;
1368b1d57f15SBarry Smith       PetscInt    *jj,*garray = aij->garray;
1369899cda47SBarry Smith       ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr);
1370899cda47SBarry Smith       ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr);
1371899cda47SBarry Smith       ierr = PetscMemzero(tmp,mat->cmap.N*sizeof(PetscReal));CHKERRQ(ierr);
137204ca555eSLois Curfman McInnes       *norm = 0.0;
137304ca555eSLois Curfman McInnes       v = amat->a; jj = amat->j;
137404ca555eSLois Curfman McInnes       for (j=0; j<amat->nz; j++) {
1375bfec09a0SHong Zhang         tmp[cstart + *jj++ ] += PetscAbsScalar(*v);  v++;
137604ca555eSLois Curfman McInnes       }
137704ca555eSLois Curfman McInnes       v = bmat->a; jj = bmat->j;
137804ca555eSLois Curfman McInnes       for (j=0; j<bmat->nz; j++) {
1379bfec09a0SHong Zhang         tmp[garray[*jj++]] += PetscAbsScalar(*v); v++;
138004ca555eSLois Curfman McInnes       }
13817adad957SLisandro Dalcin       ierr = MPI_Allreduce(tmp,tmp2,mat->cmap.N,MPIU_REAL,MPI_SUM,((PetscObject)mat)->comm);CHKERRQ(ierr);
1382899cda47SBarry Smith       for (j=0; j<mat->cmap.N; j++) {
138304ca555eSLois Curfman McInnes         if (tmp2[j] > *norm) *norm = tmp2[j];
138404ca555eSLois Curfman McInnes       }
1385606d414cSSatish Balay       ierr = PetscFree(tmp);CHKERRQ(ierr);
1386606d414cSSatish Balay       ierr = PetscFree(tmp2);CHKERRQ(ierr);
13873a40ed3dSBarry Smith     } else if (type == NORM_INFINITY) { /* max row norm */
1388329f5518SBarry Smith       PetscReal ntemp = 0.0;
1389899cda47SBarry Smith       for (j=0; j<aij->A->rmap.n; j++) {
1390bfec09a0SHong Zhang         v = amat->a + amat->i[j];
139104ca555eSLois Curfman McInnes         sum = 0.0;
139204ca555eSLois Curfman McInnes         for (i=0; i<amat->i[j+1]-amat->i[j]; i++) {
1393cddf8d76SBarry Smith           sum += PetscAbsScalar(*v); v++;
139404ca555eSLois Curfman McInnes         }
1395bfec09a0SHong Zhang         v = bmat->a + bmat->i[j];
139604ca555eSLois Curfman McInnes         for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) {
1397cddf8d76SBarry Smith           sum += PetscAbsScalar(*v); v++;
139804ca555eSLois Curfman McInnes         }
1399515d9167SLois Curfman McInnes         if (sum > ntemp) ntemp = sum;
140004ca555eSLois Curfman McInnes       }
14017adad957SLisandro Dalcin       ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,((PetscObject)mat)->comm);CHKERRQ(ierr);
1402ca161407SBarry Smith     } else {
140329bbc08cSBarry Smith       SETERRQ(PETSC_ERR_SUP,"No support for two norm");
140404ca555eSLois Curfman McInnes     }
140537fa93a5SLois Curfman McInnes   }
14063a40ed3dSBarry Smith   PetscFunctionReturn(0);
1407855ac2c5SLois Curfman McInnes }
1408855ac2c5SLois Curfman McInnes 
14094a2ae208SSatish Balay #undef __FUNCT__
14104a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ"
1411dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout)
1412b7c46309SBarry Smith {
1413b7c46309SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
1414da668accSHong Zhang   Mat_SeqAIJ     *Aloc=(Mat_SeqAIJ*)a->A->data,*Bloc=(Mat_SeqAIJ*)a->B->data;
1415dfbe8321SBarry Smith   PetscErrorCode ierr;
1416da668accSHong Zhang   PetscInt       M = A->rmap.N,N = A->cmap.N,ma,na,mb,*ai,*aj,*bi,*bj,row,*cols,i,*d_nnz;
1417da668accSHong Zhang   PetscInt       cstart=A->cmap.rstart,ncol;
14183a40ed3dSBarry Smith   Mat            B;
141987828ca2SBarry Smith   PetscScalar    *array;
1420b7c46309SBarry Smith 
14213a40ed3dSBarry Smith   PetscFunctionBegin;
1422da668accSHong Zhang   if (!matout && M != N) SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place");
1423da668accSHong Zhang 
1424da668accSHong Zhang   /* compute d_nnz for preallocation; o_nnz is approximated by d_nnz to avoid communication */
1425da668accSHong Zhang   ma = A->rmap.n; na = A->cmap.n; mb = a->B->rmap.n;
1426da668accSHong Zhang   ai = Aloc->i; aj = Aloc->j;
1427da668accSHong Zhang   bi = Bloc->i; bj = Bloc->j;
1428da668accSHong Zhang   ierr = PetscMalloc((1+na+bi[mb])*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr);
1429da668accSHong Zhang   cols = d_nnz + na + 1; /* work space to be used by B part */
1430da668accSHong Zhang   ierr = PetscMemzero(d_nnz,(1+na)*sizeof(PetscInt));CHKERRQ(ierr);
1431da668accSHong Zhang   for (i=0; i<ai[ma]; i++){
1432da668accSHong Zhang     d_nnz[aj[i]] ++;
1433da668accSHong Zhang     aj[i] += cstart; /* global col index to be used by MatSetValues() */
1434d4bb536fSBarry Smith   }
1435d4bb536fSBarry Smith 
14367adad957SLisandro Dalcin   ierr = MatCreate(((PetscObject)A)->comm,&B);CHKERRQ(ierr);
1437899cda47SBarry Smith   ierr = MatSetSizes(B,A->cmap.n,A->rmap.n,N,M);CHKERRQ(ierr);
14387adad957SLisandro Dalcin   ierr = MatSetType(B,((PetscObject)A)->type_name);CHKERRQ(ierr);
1439da668accSHong Zhang   ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,d_nnz);CHKERRQ(ierr);
1440b7c46309SBarry Smith 
1441b7c46309SBarry Smith   /* copy over the A part */
1442da668accSHong Zhang   array = Aloc->a;
1443899cda47SBarry Smith   row = A->rmap.rstart;
1444da668accSHong Zhang   for (i=0; i<ma; i++) {
1445da668accSHong Zhang     ncol = ai[i+1]-ai[i];
1446da668accSHong Zhang     ierr = MatSetValues(B,ncol,aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr);
1447da668accSHong Zhang     row++; array += ncol; aj += ncol;
1448b7c46309SBarry Smith   }
1449b7c46309SBarry Smith   aj = Aloc->j;
1450da668accSHong Zhang   for (i=0; i<ai[ma]; i++) aj[i] -= cstart; /* resume local col index */
1451b7c46309SBarry Smith 
1452b7c46309SBarry Smith   /* copy over the B part */
1453da668accSHong Zhang   array = Bloc->a;
1454899cda47SBarry Smith   row = A->rmap.rstart;
1455da668accSHong Zhang   for (i=0; i<bi[mb]; i++) {cols[i] = a->garray[bj[i]];}
1456da668accSHong Zhang   for (i=0; i<mb; i++) {
1457da668accSHong Zhang     ncol = bi[i+1]-bi[i];
1458da668accSHong Zhang     ierr = MatSetValues(B,ncol,cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr);
1459da668accSHong Zhang     row++; array += ncol; cols += ncol;
1460b7c46309SBarry Smith   }
1461da668accSHong Zhang   ierr = PetscFree(d_nnz);CHKERRQ(ierr);
14626d4a8577SBarry Smith   ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
14636d4a8577SBarry Smith   ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
14647c922b88SBarry Smith   if (matout) {
14650de55854SLois Curfman McInnes     *matout = B;
14660de55854SLois Curfman McInnes   } else {
1467273d9f13SBarry Smith     ierr = MatHeaderCopy(A,B);CHKERRQ(ierr);
14680de55854SLois Curfman McInnes   }
14693a40ed3dSBarry Smith   PetscFunctionReturn(0);
1470b7c46309SBarry Smith }
1471b7c46309SBarry Smith 
14724a2ae208SSatish Balay #undef __FUNCT__
14734a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ"
1474dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr)
1475a008b906SSatish Balay {
14764b967eb1SSatish Balay   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
14774b967eb1SSatish Balay   Mat            a = aij->A,b = aij->B;
1478dfbe8321SBarry Smith   PetscErrorCode ierr;
1479b1d57f15SBarry Smith   PetscInt       s1,s2,s3;
1480a008b906SSatish Balay 
14813a40ed3dSBarry Smith   PetscFunctionBegin;
14824b967eb1SSatish Balay   ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr);
14834b967eb1SSatish Balay   if (rr) {
1484e1311b90SBarry Smith     ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr);
148529bbc08cSBarry Smith     if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size");
14864b967eb1SSatish Balay     /* Overlap communication with computation. */
1487ca9f406cSSatish Balay     ierr = VecScatterBegin(aij->Mvctx,rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
1488a008b906SSatish Balay   }
14894b967eb1SSatish Balay   if (ll) {
1490e1311b90SBarry Smith     ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr);
149129bbc08cSBarry Smith     if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size");
1492f830108cSBarry Smith     ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr);
14934b967eb1SSatish Balay   }
14944b967eb1SSatish Balay   /* scale  the diagonal block */
1495f830108cSBarry Smith   ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr);
14964b967eb1SSatish Balay 
14974b967eb1SSatish Balay   if (rr) {
14984b967eb1SSatish Balay     /* Do a scatter end and then right scale the off-diagonal block */
1499ca9f406cSSatish Balay     ierr = VecScatterEnd(aij->Mvctx,rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr);
1500f830108cSBarry Smith     ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr);
15014b967eb1SSatish Balay   }
15024b967eb1SSatish Balay 
15033a40ed3dSBarry Smith   PetscFunctionReturn(0);
1504a008b906SSatish Balay }
1505a008b906SSatish Balay 
15064a2ae208SSatish Balay #undef __FUNCT__
1507521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ"
1508521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs)
15095a838052SSatish Balay {
1510521d7252SBarry Smith   Mat_MPIAIJ     *a   = (Mat_MPIAIJ*)A->data;
1511521d7252SBarry Smith   PetscErrorCode ierr;
1512521d7252SBarry Smith 
15133a40ed3dSBarry Smith   PetscFunctionBegin;
1514521d7252SBarry Smith   ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr);
1515521d7252SBarry Smith   ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr);
15163a40ed3dSBarry Smith   PetscFunctionReturn(0);
15175a838052SSatish Balay }
15184a2ae208SSatish Balay #undef __FUNCT__
15194a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ"
1520dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A)
1521bb5a7306SBarry Smith {
1522bb5a7306SBarry Smith   Mat_MPIAIJ     *a   = (Mat_MPIAIJ*)A->data;
1523dfbe8321SBarry Smith   PetscErrorCode ierr;
15243a40ed3dSBarry Smith 
15253a40ed3dSBarry Smith   PetscFunctionBegin;
1526bb5a7306SBarry Smith   ierr = MatSetUnfactored(a->A);CHKERRQ(ierr);
15273a40ed3dSBarry Smith   PetscFunctionReturn(0);
1528bb5a7306SBarry Smith }
1529bb5a7306SBarry Smith 
15304a2ae208SSatish Balay #undef __FUNCT__
15314a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ"
1532dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag)
1533d4bb536fSBarry Smith {
1534d4bb536fSBarry Smith   Mat_MPIAIJ     *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data;
1535d4bb536fSBarry Smith   Mat            a,b,c,d;
1536d4bb536fSBarry Smith   PetscTruth     flg;
1537dfbe8321SBarry Smith   PetscErrorCode ierr;
1538d4bb536fSBarry Smith 
15393a40ed3dSBarry Smith   PetscFunctionBegin;
1540d4bb536fSBarry Smith   a = matA->A; b = matA->B;
1541d4bb536fSBarry Smith   c = matB->A; d = matB->B;
1542d4bb536fSBarry Smith 
1543d4bb536fSBarry Smith   ierr = MatEqual(a,c,&flg);CHKERRQ(ierr);
1544abc0a331SBarry Smith   if (flg) {
1545d4bb536fSBarry Smith     ierr = MatEqual(b,d,&flg);CHKERRQ(ierr);
1546d4bb536fSBarry Smith   }
15477adad957SLisandro Dalcin   ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,((PetscObject)A)->comm);CHKERRQ(ierr);
15483a40ed3dSBarry Smith   PetscFunctionReturn(0);
1549d4bb536fSBarry Smith }
1550d4bb536fSBarry Smith 
15514a2ae208SSatish Balay #undef __FUNCT__
15524a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ"
1553dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str)
1554cb5b572fSBarry Smith {
1555dfbe8321SBarry Smith   PetscErrorCode ierr;
1556cb5b572fSBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ *)A->data;
1557cb5b572fSBarry Smith   Mat_MPIAIJ     *b = (Mat_MPIAIJ *)B->data;
1558cb5b572fSBarry Smith 
1559cb5b572fSBarry Smith   PetscFunctionBegin;
156033f4a19fSKris Buschelman   /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */
156133f4a19fSKris Buschelman   if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) {
1562cb5b572fSBarry Smith     /* because of the column compression in the off-processor part of the matrix a->B,
1563cb5b572fSBarry Smith        the number of columns in a->B and b->B may be different, hence we cannot call
1564cb5b572fSBarry Smith        the MatCopy() directly on the two parts. If need be, we can provide a more
1565cb5b572fSBarry Smith        efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices
1566cb5b572fSBarry Smith        then copying the submatrices */
1567cb5b572fSBarry Smith     ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr);
1568cb5b572fSBarry Smith   } else {
1569cb5b572fSBarry Smith     ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr);
1570cb5b572fSBarry Smith     ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr);
1571cb5b572fSBarry Smith   }
1572cb5b572fSBarry Smith   PetscFunctionReturn(0);
1573cb5b572fSBarry Smith }
1574cb5b572fSBarry Smith 
15754a2ae208SSatish Balay #undef __FUNCT__
15764a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ"
1577dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A)
1578273d9f13SBarry Smith {
1579dfbe8321SBarry Smith   PetscErrorCode ierr;
1580273d9f13SBarry Smith 
1581273d9f13SBarry Smith   PetscFunctionBegin;
1582273d9f13SBarry Smith   ierr =  MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr);
1583273d9f13SBarry Smith   PetscFunctionReturn(0);
1584273d9f13SBarry Smith }
1585273d9f13SBarry Smith 
1586ac90fabeSBarry Smith #include "petscblaslapack.h"
1587ac90fabeSBarry Smith #undef __FUNCT__
1588ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ"
1589f4df32b1SMatthew Knepley PetscErrorCode MatAXPY_MPIAIJ(Mat Y,PetscScalar a,Mat X,MatStructure str)
1590ac90fabeSBarry Smith {
1591dfbe8321SBarry Smith   PetscErrorCode ierr;
1592b1d57f15SBarry Smith   PetscInt       i;
1593ac90fabeSBarry Smith   Mat_MPIAIJ     *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data;
15944ce68768SBarry Smith   PetscBLASInt   bnz,one=1;
1595ac90fabeSBarry Smith   Mat_SeqAIJ     *x,*y;
1596ac90fabeSBarry Smith 
1597ac90fabeSBarry Smith   PetscFunctionBegin;
1598ac90fabeSBarry Smith   if (str == SAME_NONZERO_PATTERN) {
1599f4df32b1SMatthew Knepley     PetscScalar alpha = a;
1600ac90fabeSBarry Smith     x = (Mat_SeqAIJ *)xx->A->data;
1601ac90fabeSBarry Smith     y = (Mat_SeqAIJ *)yy->A->data;
1602*0805154bSBarry Smith     bnz = PetscBLASIntCast(x->nz);
1603f4df32b1SMatthew Knepley     BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one);
1604ac90fabeSBarry Smith     x = (Mat_SeqAIJ *)xx->B->data;
1605ac90fabeSBarry Smith     y = (Mat_SeqAIJ *)yy->B->data;
1606*0805154bSBarry Smith     bnz = PetscBLASIntCast(x->nz);
1607f4df32b1SMatthew Knepley     BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one);
1608a30b2313SHong Zhang   } else if (str == SUBSET_NONZERO_PATTERN) {
1609f4df32b1SMatthew Knepley     ierr = MatAXPY_SeqAIJ(yy->A,a,xx->A,str);CHKERRQ(ierr);
1610c537a176SHong Zhang 
1611c537a176SHong Zhang     x = (Mat_SeqAIJ *)xx->B->data;
1612a30b2313SHong Zhang     y = (Mat_SeqAIJ *)yy->B->data;
1613a30b2313SHong Zhang     if (y->xtoy && y->XtoY != xx->B) {
1614a30b2313SHong Zhang       ierr = PetscFree(y->xtoy);CHKERRQ(ierr);
1615a30b2313SHong Zhang       ierr = MatDestroy(y->XtoY);CHKERRQ(ierr);
1616c537a176SHong Zhang     }
1617a30b2313SHong Zhang     if (!y->xtoy) { /* get xtoy */
1618899cda47SBarry Smith       ierr = MatAXPYGetxtoy_Private(xx->B->rmap.n,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr);
1619a30b2313SHong Zhang       y->XtoY = xx->B;
1620407f6b05SHong Zhang       ierr = PetscObjectReference((PetscObject)xx->B);CHKERRQ(ierr);
1621c537a176SHong Zhang     }
1622f4df32b1SMatthew Knepley     for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += a*(x->a[i]);
1623ac90fabeSBarry Smith   } else {
1624f4df32b1SMatthew Knepley     ierr = MatAXPY_Basic(Y,a,X,str);CHKERRQ(ierr);
1625ac90fabeSBarry Smith   }
1626ac90fabeSBarry Smith   PetscFunctionReturn(0);
1627ac90fabeSBarry Smith }
1628ac90fabeSBarry Smith 
1629354c94deSBarry Smith EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_SeqAIJ(Mat);
1630354c94deSBarry Smith 
1631354c94deSBarry Smith #undef __FUNCT__
1632354c94deSBarry Smith #define __FUNCT__ "MatConjugate_MPIAIJ"
1633354c94deSBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_MPIAIJ(Mat mat)
1634354c94deSBarry Smith {
1635354c94deSBarry Smith #if defined(PETSC_USE_COMPLEX)
1636354c94deSBarry Smith   PetscErrorCode ierr;
1637354c94deSBarry Smith   Mat_MPIAIJ     *aij = (Mat_MPIAIJ *)mat->data;
1638354c94deSBarry Smith 
1639354c94deSBarry Smith   PetscFunctionBegin;
1640354c94deSBarry Smith   ierr = MatConjugate_SeqAIJ(aij->A);CHKERRQ(ierr);
1641354c94deSBarry Smith   ierr = MatConjugate_SeqAIJ(aij->B);CHKERRQ(ierr);
1642354c94deSBarry Smith #else
1643354c94deSBarry Smith   PetscFunctionBegin;
1644354c94deSBarry Smith #endif
1645354c94deSBarry Smith   PetscFunctionReturn(0);
1646354c94deSBarry Smith }
1647354c94deSBarry Smith 
164899cafbc1SBarry Smith #undef __FUNCT__
164999cafbc1SBarry Smith #define __FUNCT__ "MatRealPart_MPIAIJ"
165099cafbc1SBarry Smith PetscErrorCode MatRealPart_MPIAIJ(Mat A)
165199cafbc1SBarry Smith {
165299cafbc1SBarry Smith   Mat_MPIAIJ   *a = (Mat_MPIAIJ*)A->data;
165399cafbc1SBarry Smith   PetscErrorCode ierr;
165499cafbc1SBarry Smith 
165599cafbc1SBarry Smith   PetscFunctionBegin;
165699cafbc1SBarry Smith   ierr = MatRealPart(a->A);CHKERRQ(ierr);
165799cafbc1SBarry Smith   ierr = MatRealPart(a->B);CHKERRQ(ierr);
165899cafbc1SBarry Smith   PetscFunctionReturn(0);
165999cafbc1SBarry Smith }
166099cafbc1SBarry Smith 
166199cafbc1SBarry Smith #undef __FUNCT__
166299cafbc1SBarry Smith #define __FUNCT__ "MatImaginaryPart_MPIAIJ"
166399cafbc1SBarry Smith PetscErrorCode MatImaginaryPart_MPIAIJ(Mat A)
166499cafbc1SBarry Smith {
166599cafbc1SBarry Smith   Mat_MPIAIJ   *a = (Mat_MPIAIJ*)A->data;
166699cafbc1SBarry Smith   PetscErrorCode ierr;
166799cafbc1SBarry Smith 
166899cafbc1SBarry Smith   PetscFunctionBegin;
166999cafbc1SBarry Smith   ierr = MatImaginaryPart(a->A);CHKERRQ(ierr);
167099cafbc1SBarry Smith   ierr = MatImaginaryPart(a->B);CHKERRQ(ierr);
167199cafbc1SBarry Smith   PetscFunctionReturn(0);
167299cafbc1SBarry Smith }
167399cafbc1SBarry Smith 
1674103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL
1675103bf8bdSMatthew Knepley 
1676103bf8bdSMatthew Knepley #include <boost/parallel/mpi/bsp_process_group.hpp>
1677a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_default_graph.hpp>
1678a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_0_block.hpp>
1679a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_preconditioner.hpp>
1680103bf8bdSMatthew Knepley #include <boost/graph/distributed/petsc/interface.hpp>
1681a2c909beSMatthew Knepley #include <boost/multi_array.hpp>
1682a2c909beSMatthew Knepley #include <boost/parallel/distributed_property_map.hpp>
1683103bf8bdSMatthew Knepley 
1684103bf8bdSMatthew Knepley #undef __FUNCT__
1685103bf8bdSMatthew Knepley #define __FUNCT__ "MatILUFactorSymbolic_MPIAIJ"
1686103bf8bdSMatthew Knepley /*
1687103bf8bdSMatthew Knepley   This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu>
1688103bf8bdSMatthew Knepley */
1689103bf8bdSMatthew Knepley PetscErrorCode MatILUFactorSymbolic_MPIAIJ(Mat A, IS isrow, IS iscol, MatFactorInfo *info, Mat *fact)
1690103bf8bdSMatthew Knepley {
1691a2c909beSMatthew Knepley   namespace petsc = boost::distributed::petsc;
1692a2c909beSMatthew Knepley 
1693a2c909beSMatthew Knepley   namespace graph_dist = boost::graph::distributed;
1694a2c909beSMatthew Knepley   using boost::graph::distributed::ilu_default::process_group_type;
1695a2c909beSMatthew Knepley   using boost::graph::ilu_permuted;
1696a2c909beSMatthew Knepley 
1697103bf8bdSMatthew Knepley   PetscTruth      row_identity, col_identity;
1698776b82aeSLisandro Dalcin   PetscContainer  c;
1699103bf8bdSMatthew Knepley   PetscInt        m, n, M, N;
1700103bf8bdSMatthew Knepley   PetscErrorCode  ierr;
1701103bf8bdSMatthew Knepley 
1702103bf8bdSMatthew Knepley   PetscFunctionBegin;
1703103bf8bdSMatthew Knepley   if (info->levels != 0) SETERRQ(PETSC_ERR_SUP,"Only levels = 0 supported for parallel ilu");
1704103bf8bdSMatthew Knepley   ierr = ISIdentity(isrow, &row_identity);CHKERRQ(ierr);
1705103bf8bdSMatthew Knepley   ierr = ISIdentity(iscol, &col_identity);CHKERRQ(ierr);
1706103bf8bdSMatthew Knepley   if (!row_identity || !col_identity) {
1707103bf8bdSMatthew Knepley     SETERRQ(PETSC_ERR_ARG_WRONG,"Row and column permutations must be identity for parallel ILU");
1708103bf8bdSMatthew Knepley   }
1709103bf8bdSMatthew Knepley 
1710103bf8bdSMatthew Knepley   process_group_type pg;
1711a2c909beSMatthew Knepley   typedef graph_dist::ilu_default::ilu_level_graph_type  lgraph_type;
1712a2c909beSMatthew Knepley   lgraph_type*   lgraph_p = new lgraph_type(petsc::num_global_vertices(A), pg, petsc::matrix_distribution(A, pg));
1713a2c909beSMatthew Knepley   lgraph_type&   level_graph = *lgraph_p;
1714a2c909beSMatthew Knepley   graph_dist::ilu_default::graph_type&            graph(level_graph.graph);
1715a2c909beSMatthew Knepley 
1716103bf8bdSMatthew Knepley   petsc::read_matrix(A, graph, get(boost::edge_weight, graph));
1717a2c909beSMatthew Knepley   ilu_permuted(level_graph);
1718103bf8bdSMatthew Knepley 
1719103bf8bdSMatthew Knepley   /* put together the new matrix */
17207adad957SLisandro Dalcin   ierr = MatCreate(((PetscObject)A)->comm, fact);CHKERRQ(ierr);
1721103bf8bdSMatthew Knepley   ierr = MatGetLocalSize(A, &m, &n);CHKERRQ(ierr);
1722103bf8bdSMatthew Knepley   ierr = MatGetSize(A, &M, &N);CHKERRQ(ierr);
1723103bf8bdSMatthew Knepley   ierr = MatSetSizes(*fact, m, n, M, N);CHKERRQ(ierr);
17247adad957SLisandro Dalcin   ierr = MatSetType(*fact, ((PetscObject)A)->type_name);CHKERRQ(ierr);
172510bd6422SMatthew Knepley   ierr = MatAssemblyBegin(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
172610bd6422SMatthew Knepley   ierr = MatAssemblyEnd(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
1727103bf8bdSMatthew Knepley   (*fact)->factor = FACTOR_LU;
1728103bf8bdSMatthew Knepley 
17297adad957SLisandro Dalcin   ierr = PetscContainerCreate(((PetscObject)A)->comm, &c);
1730776b82aeSLisandro Dalcin   ierr = PetscContainerSetPointer(c, lgraph_p);
1731103bf8bdSMatthew Knepley   ierr = PetscObjectCompose((PetscObject) (*fact), "graph", (PetscObject) c);
1732103bf8bdSMatthew Knepley   PetscFunctionReturn(0);
1733103bf8bdSMatthew Knepley }
1734103bf8bdSMatthew Knepley 
1735103bf8bdSMatthew Knepley #undef __FUNCT__
1736103bf8bdSMatthew Knepley #define __FUNCT__ "MatLUFactorNumeric_MPIAIJ"
1737103bf8bdSMatthew Knepley PetscErrorCode MatLUFactorNumeric_MPIAIJ(Mat A, MatFactorInfo *info, Mat *B)
1738103bf8bdSMatthew Knepley {
1739103bf8bdSMatthew Knepley   PetscFunctionBegin;
1740103bf8bdSMatthew Knepley   PetscFunctionReturn(0);
1741103bf8bdSMatthew Knepley }
1742103bf8bdSMatthew Knepley 
1743103bf8bdSMatthew Knepley #undef __FUNCT__
1744103bf8bdSMatthew Knepley #define __FUNCT__ "MatSolve_MPIAIJ"
1745103bf8bdSMatthew Knepley /*
1746103bf8bdSMatthew Knepley   This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu>
1747103bf8bdSMatthew Knepley */
1748103bf8bdSMatthew Knepley PetscErrorCode MatSolve_MPIAIJ(Mat A, Vec b, Vec x)
1749103bf8bdSMatthew Knepley {
1750a2c909beSMatthew Knepley   namespace graph_dist = boost::graph::distributed;
1751a2c909beSMatthew Knepley 
1752a2c909beSMatthew Knepley   typedef graph_dist::ilu_default::ilu_level_graph_type  lgraph_type;
1753a2c909beSMatthew Knepley   lgraph_type*   lgraph_p;
1754776b82aeSLisandro Dalcin   PetscContainer c;
1755103bf8bdSMatthew Knepley   PetscErrorCode ierr;
1756103bf8bdSMatthew Knepley 
1757103bf8bdSMatthew Knepley   PetscFunctionBegin;
1758103bf8bdSMatthew Knepley   ierr = PetscObjectQuery((PetscObject) A, "graph", (PetscObject *) &c);CHKERRQ(ierr);
1759776b82aeSLisandro Dalcin   ierr = PetscContainerGetPointer(c, (void **) &lgraph_p);CHKERRQ(ierr);
1760103bf8bdSMatthew Knepley   ierr = VecCopy(b, x); CHKERRQ(ierr);
1761a2c909beSMatthew Knepley 
1762a2c909beSMatthew Knepley   PetscScalar* array_x;
1763a2c909beSMatthew Knepley   ierr = VecGetArray(x, &array_x);CHKERRQ(ierr);
1764a2c909beSMatthew Knepley   PetscInt sx;
1765a2c909beSMatthew Knepley   ierr = VecGetSize(x, &sx);CHKERRQ(ierr);
1766a2c909beSMatthew Knepley 
1767a2c909beSMatthew Knepley   PetscScalar* array_b;
1768a2c909beSMatthew Knepley   ierr = VecGetArray(b, &array_b);CHKERRQ(ierr);
1769a2c909beSMatthew Knepley   PetscInt sb;
1770a2c909beSMatthew Knepley   ierr = VecGetSize(b, &sb);CHKERRQ(ierr);
1771a2c909beSMatthew Knepley 
1772a2c909beSMatthew Knepley   lgraph_type&   level_graph = *lgraph_p;
1773a2c909beSMatthew Knepley   graph_dist::ilu_default::graph_type&            graph(level_graph.graph);
1774a2c909beSMatthew Knepley 
1775a2c909beSMatthew Knepley   typedef boost::multi_array_ref<PetscScalar, 1> array_ref_type;
1776a2c909beSMatthew Knepley   array_ref_type                                 ref_b(array_b, boost::extents[num_vertices(graph)]),
1777a2c909beSMatthew Knepley                                                  ref_x(array_x, boost::extents[num_vertices(graph)]);
1778a2c909beSMatthew Knepley 
1779a2c909beSMatthew Knepley   typedef boost::iterator_property_map<array_ref_type::iterator,
1780a2c909beSMatthew Knepley                                 boost::property_map<graph_dist::ilu_default::graph_type, boost::vertex_index_t>::type>  gvector_type;
1781a2c909beSMatthew Knepley   gvector_type                                   vector_b(ref_b.begin(), get(boost::vertex_index, graph)),
1782a2c909beSMatthew Knepley                                                  vector_x(ref_x.begin(), get(boost::vertex_index, graph));
1783a2c909beSMatthew Knepley 
1784a2c909beSMatthew Knepley   ilu_set_solve(*lgraph_p, vector_b, vector_x);
1785a2c909beSMatthew Knepley 
1786103bf8bdSMatthew Knepley   PetscFunctionReturn(0);
1787103bf8bdSMatthew Knepley }
1788103bf8bdSMatthew Knepley #endif
1789103bf8bdSMatthew Knepley 
179069db28dcSHong Zhang typedef struct { /* used by MatGetRedundantMatrix() for reusing matredundant */
179169db28dcSHong Zhang   PetscInt       nzlocal,nsends,nrecvs;
1792aa5bb8c0SSatish Balay   PetscMPIInt    *send_rank;
1793aa5bb8c0SSatish Balay   PetscInt       *sbuf_nz,*sbuf_j,**rbuf_j;
179469db28dcSHong Zhang   PetscScalar    *sbuf_a,**rbuf_a;
179569db28dcSHong Zhang   PetscErrorCode (*MatDestroy)(Mat);
179669db28dcSHong Zhang } Mat_Redundant;
179769db28dcSHong Zhang 
179869db28dcSHong Zhang #undef __FUNCT__
179969db28dcSHong Zhang #define __FUNCT__ "PetscContainerDestroy_MatRedundant"
180069db28dcSHong Zhang PetscErrorCode PetscContainerDestroy_MatRedundant(void *ptr)
180169db28dcSHong Zhang {
180269db28dcSHong Zhang   PetscErrorCode       ierr;
180369db28dcSHong Zhang   Mat_Redundant        *redund=(Mat_Redundant*)ptr;
180469db28dcSHong Zhang   PetscInt             i;
180569db28dcSHong Zhang 
180669db28dcSHong Zhang   PetscFunctionBegin;
180769db28dcSHong Zhang   ierr = PetscFree(redund->send_rank);CHKERRQ(ierr);
180869db28dcSHong Zhang   ierr = PetscFree(redund->sbuf_j);CHKERRQ(ierr);
180969db28dcSHong Zhang   ierr = PetscFree(redund->sbuf_a);CHKERRQ(ierr);
181069db28dcSHong Zhang   for (i=0; i<redund->nrecvs; i++){
181169db28dcSHong Zhang     ierr = PetscFree(redund->rbuf_j[i]);CHKERRQ(ierr);
181269db28dcSHong Zhang     ierr = PetscFree(redund->rbuf_a[i]);CHKERRQ(ierr);
181369db28dcSHong Zhang   }
181469db28dcSHong Zhang   ierr = PetscFree3(redund->sbuf_nz,redund->rbuf_j,redund->rbuf_a);CHKERRQ(ierr);
181569db28dcSHong Zhang   ierr = PetscFree(redund);CHKERRQ(ierr);
181669db28dcSHong Zhang   PetscFunctionReturn(0);
181769db28dcSHong Zhang }
181869db28dcSHong Zhang 
181969db28dcSHong Zhang #undef __FUNCT__
182069db28dcSHong Zhang #define __FUNCT__ "MatDestroy_MatRedundant"
182169db28dcSHong Zhang PetscErrorCode MatDestroy_MatRedundant(Mat A)
182269db28dcSHong Zhang {
182369db28dcSHong Zhang   PetscErrorCode  ierr;
182469db28dcSHong Zhang   PetscContainer  container;
182569db28dcSHong Zhang   Mat_Redundant   *redund=PETSC_NULL;
182669db28dcSHong Zhang 
182769db28dcSHong Zhang   PetscFunctionBegin;
182869db28dcSHong Zhang   ierr = PetscObjectQuery((PetscObject)A,"Mat_Redundant",(PetscObject *)&container);CHKERRQ(ierr);
182969db28dcSHong Zhang   if (container) {
183069db28dcSHong Zhang     ierr = PetscContainerGetPointer(container,(void **)&redund);CHKERRQ(ierr);
183169db28dcSHong Zhang   } else {
183269db28dcSHong Zhang     SETERRQ(PETSC_ERR_PLIB,"Container does not exit");
183369db28dcSHong Zhang   }
183469db28dcSHong Zhang   A->ops->destroy = redund->MatDestroy;
183569db28dcSHong Zhang   ierr = PetscObjectCompose((PetscObject)A,"Mat_Redundant",0);CHKERRQ(ierr);
183669db28dcSHong Zhang   ierr = (*A->ops->destroy)(A);CHKERRQ(ierr);
183769db28dcSHong Zhang   ierr = PetscContainerDestroy(container);CHKERRQ(ierr);
183869db28dcSHong Zhang   PetscFunctionReturn(0);
183969db28dcSHong Zhang }
184069db28dcSHong Zhang 
184169db28dcSHong Zhang #undef __FUNCT__
184269db28dcSHong Zhang #define __FUNCT__ "MatGetRedundantMatrix_MPIAIJ"
184369db28dcSHong Zhang PetscErrorCode MatGetRedundantMatrix_MPIAIJ(Mat mat,PetscInt nsubcomm,MPI_Comm subcomm,PetscInt mlocal_sub,MatReuse reuse,Mat *matredundant)
184469db28dcSHong Zhang {
184569db28dcSHong Zhang   PetscMPIInt    rank,size;
18467adad957SLisandro Dalcin   MPI_Comm       comm=((PetscObject)mat)->comm;
184769db28dcSHong Zhang   PetscErrorCode ierr;
184869db28dcSHong Zhang   PetscInt       nsends=0,nrecvs=0,i,rownz_max=0;
184969db28dcSHong Zhang   PetscMPIInt    *send_rank=PETSC_NULL,*recv_rank=PETSC_NULL;
185069db28dcSHong Zhang   PetscInt       *rowrange=mat->rmap.range;
185169db28dcSHong Zhang   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
185269db28dcSHong Zhang   Mat            A=aij->A,B=aij->B,C=*matredundant;
185369db28dcSHong Zhang   Mat_SeqAIJ     *a=(Mat_SeqAIJ*)A->data,*b=(Mat_SeqAIJ*)B->data;
185469db28dcSHong Zhang   PetscScalar    *sbuf_a;
185569db28dcSHong Zhang   PetscInt       nzlocal=a->nz+b->nz;
185669db28dcSHong Zhang   PetscInt       j,cstart=mat->cmap.rstart,cend=mat->cmap.rend,row,nzA,nzB,ncols,*cworkA,*cworkB;
185769db28dcSHong Zhang   PetscInt       rstart=mat->rmap.rstart,rend=mat->rmap.rend,*bmap=aij->garray,M,N;
185869db28dcSHong Zhang   PetscInt       *cols,ctmp,lwrite,*rptr,l,*sbuf_j;
185969db28dcSHong Zhang   PetscScalar    *vals,*aworkA,*aworkB;
186069db28dcSHong Zhang   PetscMPIInt    tag1,tag2,tag3,imdex;
186169db28dcSHong Zhang   MPI_Request    *s_waits1=PETSC_NULL,*s_waits2=PETSC_NULL,*s_waits3=PETSC_NULL,
186269db28dcSHong Zhang                  *r_waits1=PETSC_NULL,*r_waits2=PETSC_NULL,*r_waits3=PETSC_NULL;
186369db28dcSHong Zhang   MPI_Status     recv_status,*send_status;
186469db28dcSHong Zhang   PetscInt       *sbuf_nz=PETSC_NULL,*rbuf_nz=PETSC_NULL,count;
186569db28dcSHong Zhang   PetscInt       **rbuf_j=PETSC_NULL;
186669db28dcSHong Zhang   PetscScalar    **rbuf_a=PETSC_NULL;
186769db28dcSHong Zhang   Mat_Redundant  *redund=PETSC_NULL;
186869db28dcSHong Zhang   PetscContainer container;
186969db28dcSHong Zhang 
187069db28dcSHong Zhang   PetscFunctionBegin;
187169db28dcSHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
187269db28dcSHong Zhang   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
187369db28dcSHong Zhang 
187469db28dcSHong Zhang   if (reuse == MAT_REUSE_MATRIX) {
187569db28dcSHong Zhang     ierr = MatGetSize(C,&M,&N);CHKERRQ(ierr);
187669db28dcSHong Zhang     if (M != N || M != mat->rmap.N) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong global size");
187769db28dcSHong Zhang     ierr = MatGetLocalSize(C,&M,&N);CHKERRQ(ierr);
187869db28dcSHong Zhang     if (M != N || M != mlocal_sub) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong local size");
187969db28dcSHong Zhang     ierr = PetscObjectQuery((PetscObject)C,"Mat_Redundant",(PetscObject *)&container);CHKERRQ(ierr);
188069db28dcSHong Zhang     if (container) {
188169db28dcSHong Zhang       ierr = PetscContainerGetPointer(container,(void **)&redund);CHKERRQ(ierr);
188269db28dcSHong Zhang     } else {
188369db28dcSHong Zhang       SETERRQ(PETSC_ERR_PLIB,"Container does not exit");
188469db28dcSHong Zhang     }
188569db28dcSHong Zhang     if (nzlocal != redund->nzlocal) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong nzlocal");
188669db28dcSHong Zhang 
188769db28dcSHong Zhang     nsends    = redund->nsends;
188869db28dcSHong Zhang     nrecvs    = redund->nrecvs;
188969db28dcSHong Zhang     send_rank = redund->send_rank; recv_rank = send_rank + size;
189069db28dcSHong Zhang     sbuf_nz   = redund->sbuf_nz;     rbuf_nz = sbuf_nz + nsends;
189169db28dcSHong Zhang     sbuf_j    = redund->sbuf_j;
189269db28dcSHong Zhang     sbuf_a    = redund->sbuf_a;
189369db28dcSHong Zhang     rbuf_j    = redund->rbuf_j;
189469db28dcSHong Zhang     rbuf_a    = redund->rbuf_a;
189569db28dcSHong Zhang   }
189669db28dcSHong Zhang 
189769db28dcSHong Zhang   if (reuse == MAT_INITIAL_MATRIX){
189869db28dcSHong Zhang     PetscMPIInt  subrank,subsize;
189969db28dcSHong Zhang     PetscInt     nleftover,np_subcomm;
190069db28dcSHong Zhang     /* get the destination processors' id send_rank, nsends and nrecvs */
190169db28dcSHong Zhang     ierr = MPI_Comm_rank(subcomm,&subrank);CHKERRQ(ierr);
190269db28dcSHong Zhang     ierr = MPI_Comm_size(subcomm,&subsize);CHKERRQ(ierr);
190369db28dcSHong Zhang     ierr = PetscMalloc((2*size+1)*sizeof(PetscMPIInt),&send_rank);
190469db28dcSHong Zhang     recv_rank = send_rank + size;
190569db28dcSHong Zhang     np_subcomm = size/nsubcomm;
190669db28dcSHong Zhang     nleftover  = size - nsubcomm*np_subcomm;
190769db28dcSHong Zhang     nsends = 0; nrecvs = 0;
190869db28dcSHong Zhang     for (i=0; i<size; i++){ /* i=rank*/
190969db28dcSHong Zhang       if (subrank == i/nsubcomm && rank != i){ /* my_subrank == other's subrank */
191069db28dcSHong Zhang         send_rank[nsends] = i; nsends++;
191169db28dcSHong Zhang         recv_rank[nrecvs++] = i;
191269db28dcSHong Zhang       }
191369db28dcSHong Zhang     }
191469db28dcSHong Zhang     if (rank >= size - nleftover){/* this proc is a leftover processor */
191569db28dcSHong Zhang       i = size-nleftover-1;
191669db28dcSHong Zhang       j = 0;
191769db28dcSHong Zhang       while (j < nsubcomm - nleftover){
191869db28dcSHong Zhang         send_rank[nsends++] = i;
191969db28dcSHong Zhang         i--; j++;
192069db28dcSHong Zhang       }
192169db28dcSHong Zhang     }
192269db28dcSHong Zhang 
192369db28dcSHong Zhang     if (nleftover && subsize == size/nsubcomm && subrank==subsize-1){ /* this proc recvs from leftover processors */
192469db28dcSHong Zhang       for (i=0; i<nleftover; i++){
192569db28dcSHong Zhang         recv_rank[nrecvs++] = size-nleftover+i;
192669db28dcSHong Zhang       }
192769db28dcSHong Zhang     }
192869db28dcSHong Zhang 
192969db28dcSHong Zhang     /* allocate sbuf_j, sbuf_a */
193069db28dcSHong Zhang     i = nzlocal + rowrange[rank+1] - rowrange[rank] + 2;
193169db28dcSHong Zhang     ierr = PetscMalloc(i*sizeof(PetscInt),&sbuf_j);CHKERRQ(ierr);
193269db28dcSHong Zhang     ierr = PetscMalloc((nzlocal+1)*sizeof(PetscScalar),&sbuf_a);CHKERRQ(ierr);
193369db28dcSHong Zhang   } /* endof if (reuse == MAT_INITIAL_MATRIX) */
193469db28dcSHong Zhang 
193569db28dcSHong Zhang   /* copy mat's local entries into the buffers */
193669db28dcSHong Zhang   if (reuse == MAT_INITIAL_MATRIX){
193769db28dcSHong Zhang     rownz_max = 0;
193869db28dcSHong Zhang     rptr = sbuf_j;
193969db28dcSHong Zhang     cols = sbuf_j + rend-rstart + 1;
194069db28dcSHong Zhang     vals = sbuf_a;
194169db28dcSHong Zhang     rptr[0] = 0;
194269db28dcSHong Zhang     for (i=0; i<rend-rstart; i++){
194369db28dcSHong Zhang       row = i + rstart;
194469db28dcSHong Zhang       nzA    = a->i[i+1] - a->i[i]; nzB = b->i[i+1] - b->i[i];
194569db28dcSHong Zhang       ncols  = nzA + nzB;
194669db28dcSHong Zhang       cworkA = a->j + a->i[i]; cworkB = b->j + b->i[i];
194769db28dcSHong Zhang       aworkA = a->a + a->i[i]; aworkB = b->a + b->i[i];
194869db28dcSHong Zhang       /* load the column indices for this row into cols */
194969db28dcSHong Zhang       lwrite = 0;
195069db28dcSHong Zhang       for (l=0; l<nzB; l++) {
195169db28dcSHong Zhang         if ((ctmp = bmap[cworkB[l]]) < cstart){
195269db28dcSHong Zhang           vals[lwrite]   = aworkB[l];
195369db28dcSHong Zhang           cols[lwrite++] = ctmp;
195469db28dcSHong Zhang         }
195569db28dcSHong Zhang       }
195669db28dcSHong Zhang       for (l=0; l<nzA; l++){
195769db28dcSHong Zhang         vals[lwrite]   = aworkA[l];
195869db28dcSHong Zhang         cols[lwrite++] = cstart + cworkA[l];
195969db28dcSHong Zhang       }
196069db28dcSHong Zhang       for (l=0; l<nzB; l++) {
196169db28dcSHong Zhang         if ((ctmp = bmap[cworkB[l]]) >= cend){
196269db28dcSHong Zhang           vals[lwrite]   = aworkB[l];
196369db28dcSHong Zhang           cols[lwrite++] = ctmp;
196469db28dcSHong Zhang         }
196569db28dcSHong Zhang       }
196669db28dcSHong Zhang       vals += ncols;
196769db28dcSHong Zhang       cols += ncols;
196869db28dcSHong Zhang       rptr[i+1] = rptr[i] + ncols;
196969db28dcSHong Zhang       if (rownz_max < ncols) rownz_max = ncols;
197069db28dcSHong Zhang     }
197169db28dcSHong Zhang     if (rptr[rend-rstart] != a->nz + b->nz) SETERRQ4(1, "rptr[%d] %d != %d + %d",rend-rstart,rptr[rend-rstart+1],a->nz,b->nz);
197269db28dcSHong Zhang   } else { /* only copy matrix values into sbuf_a */
197369db28dcSHong Zhang     rptr = sbuf_j;
197469db28dcSHong Zhang     vals = sbuf_a;
197569db28dcSHong Zhang     rptr[0] = 0;
197669db28dcSHong Zhang     for (i=0; i<rend-rstart; i++){
197769db28dcSHong Zhang       row = i + rstart;
197869db28dcSHong Zhang       nzA    = a->i[i+1] - a->i[i]; nzB = b->i[i+1] - b->i[i];
197969db28dcSHong Zhang       ncols  = nzA + nzB;
198069db28dcSHong Zhang       cworkA = a->j + a->i[i]; cworkB = b->j + b->i[i];
198169db28dcSHong Zhang       aworkA = a->a + a->i[i]; aworkB = b->a + b->i[i];
198269db28dcSHong Zhang       lwrite = 0;
198369db28dcSHong Zhang       for (l=0; l<nzB; l++) {
198469db28dcSHong Zhang         if ((ctmp = bmap[cworkB[l]]) < cstart) vals[lwrite++] = aworkB[l];
198569db28dcSHong Zhang       }
198669db28dcSHong Zhang       for (l=0; l<nzA; l++) vals[lwrite++] = aworkA[l];
198769db28dcSHong Zhang       for (l=0; l<nzB; l++) {
198869db28dcSHong Zhang         if ((ctmp = bmap[cworkB[l]]) >= cend) vals[lwrite++] = aworkB[l];
198969db28dcSHong Zhang       }
199069db28dcSHong Zhang       vals += ncols;
199169db28dcSHong Zhang       rptr[i+1] = rptr[i] + ncols;
199269db28dcSHong Zhang     }
199369db28dcSHong Zhang   } /* endof if (reuse == MAT_INITIAL_MATRIX) */
199469db28dcSHong Zhang 
199569db28dcSHong Zhang   /* send nzlocal to others, and recv other's nzlocal */
199669db28dcSHong Zhang   /*--------------------------------------------------*/
199769db28dcSHong Zhang   if (reuse == MAT_INITIAL_MATRIX){
199869db28dcSHong Zhang     ierr = PetscMalloc2(3*(nsends + nrecvs)+1,MPI_Request,&s_waits3,nsends+1,MPI_Status,&send_status);CHKERRQ(ierr);
199969db28dcSHong Zhang     s_waits2 = s_waits3 + nsends;
200069db28dcSHong Zhang     s_waits1 = s_waits2 + nsends;
200169db28dcSHong Zhang     r_waits1 = s_waits1 + nsends;
200269db28dcSHong Zhang     r_waits2 = r_waits1 + nrecvs;
200369db28dcSHong Zhang     r_waits3 = r_waits2 + nrecvs;
200469db28dcSHong Zhang   } else {
200569db28dcSHong Zhang     ierr = PetscMalloc2(nsends + nrecvs +1,MPI_Request,&s_waits3,nsends+1,MPI_Status,&send_status);CHKERRQ(ierr);
200669db28dcSHong Zhang     r_waits3 = s_waits3 + nsends;
200769db28dcSHong Zhang   }
200869db28dcSHong Zhang 
200969db28dcSHong Zhang   ierr = PetscObjectGetNewTag((PetscObject)mat,&tag3);CHKERRQ(ierr);
201069db28dcSHong Zhang   if (reuse == MAT_INITIAL_MATRIX){
201169db28dcSHong Zhang     /* get new tags to keep the communication clean */
201269db28dcSHong Zhang     ierr = PetscObjectGetNewTag((PetscObject)mat,&tag1);CHKERRQ(ierr);
201369db28dcSHong Zhang     ierr = PetscObjectGetNewTag((PetscObject)mat,&tag2);CHKERRQ(ierr);
201469db28dcSHong Zhang     ierr = PetscMalloc3(nsends+nrecvs+1,PetscInt,&sbuf_nz,nrecvs,PetscInt*,&rbuf_j,nrecvs,PetscScalar*,&rbuf_a);CHKERRQ(ierr);
201569db28dcSHong Zhang     rbuf_nz = sbuf_nz + nsends;
201669db28dcSHong Zhang 
201769db28dcSHong Zhang     /* post receives of other's nzlocal */
201869db28dcSHong Zhang     for (i=0; i<nrecvs; i++){
201969db28dcSHong Zhang       ierr = MPI_Irecv(rbuf_nz+i,1,MPIU_INT,MPI_ANY_SOURCE,tag1,comm,r_waits1+i);CHKERRQ(ierr);
202069db28dcSHong Zhang     }
202169db28dcSHong Zhang     /* send nzlocal to others */
202269db28dcSHong Zhang     for (i=0; i<nsends; i++){
202369db28dcSHong Zhang       sbuf_nz[i] = nzlocal;
202469db28dcSHong Zhang       ierr = MPI_Isend(sbuf_nz+i,1,MPIU_INT,send_rank[i],tag1,comm,s_waits1+i);CHKERRQ(ierr);
202569db28dcSHong Zhang     }
202669db28dcSHong Zhang     /* wait on receives of nzlocal; allocate space for rbuf_j, rbuf_a */
202769db28dcSHong Zhang     count = nrecvs;
202869db28dcSHong Zhang     while (count) {
202969db28dcSHong Zhang       ierr = MPI_Waitany(nrecvs,r_waits1,&imdex,&recv_status);CHKERRQ(ierr);
203069db28dcSHong Zhang       recv_rank[imdex] = recv_status.MPI_SOURCE;
203169db28dcSHong Zhang       /* allocate rbuf_a and rbuf_j; then post receives of rbuf_j */
203269db28dcSHong Zhang       ierr = PetscMalloc((rbuf_nz[imdex]+1)*sizeof(PetscScalar),&rbuf_a[imdex]);CHKERRQ(ierr);
203369db28dcSHong Zhang 
203469db28dcSHong Zhang       i = rowrange[recv_status.MPI_SOURCE+1] - rowrange[recv_status.MPI_SOURCE]; /* number of expected mat->i */
203569db28dcSHong Zhang       rbuf_nz[imdex] += i + 2;
203669db28dcSHong Zhang       ierr = PetscMalloc(rbuf_nz[imdex]*sizeof(PetscInt),&rbuf_j[imdex]);CHKERRQ(ierr);
203769db28dcSHong Zhang       ierr = MPI_Irecv(rbuf_j[imdex],rbuf_nz[imdex],MPIU_INT,recv_status.MPI_SOURCE,tag2,comm,r_waits2+imdex);CHKERRQ(ierr);
203869db28dcSHong Zhang       count--;
203969db28dcSHong Zhang     }
204069db28dcSHong Zhang     /* wait on sends of nzlocal */
204169db28dcSHong Zhang     if (nsends) {ierr = MPI_Waitall(nsends,s_waits1,send_status);CHKERRQ(ierr);}
204269db28dcSHong Zhang     /* send mat->i,j to others, and recv from other's */
204369db28dcSHong Zhang     /*------------------------------------------------*/
204469db28dcSHong Zhang     for (i=0; i<nsends; i++){
204569db28dcSHong Zhang       j = nzlocal + rowrange[rank+1] - rowrange[rank] + 1;
204669db28dcSHong Zhang       ierr = MPI_Isend(sbuf_j,j,MPIU_INT,send_rank[i],tag2,comm,s_waits2+i);CHKERRQ(ierr);
204769db28dcSHong Zhang     }
204869db28dcSHong Zhang     /* wait on receives of mat->i,j */
204969db28dcSHong Zhang     /*------------------------------*/
205069db28dcSHong Zhang     count = nrecvs;
205169db28dcSHong Zhang     while (count) {
205269db28dcSHong Zhang       ierr = MPI_Waitany(nrecvs,r_waits2,&imdex,&recv_status);CHKERRQ(ierr);
205369db28dcSHong Zhang       if (recv_rank[imdex] != recv_status.MPI_SOURCE) SETERRQ2(1, "recv_rank %d != MPI_SOURCE %d",recv_rank[imdex],recv_status.MPI_SOURCE);
205469db28dcSHong Zhang       count--;
205569db28dcSHong Zhang     }
205669db28dcSHong Zhang     /* wait on sends of mat->i,j */
205769db28dcSHong Zhang     /*---------------------------*/
205869db28dcSHong Zhang     if (nsends) {
205969db28dcSHong Zhang       ierr = MPI_Waitall(nsends,s_waits2,send_status);CHKERRQ(ierr);
206069db28dcSHong Zhang     }
206169db28dcSHong Zhang   } /* endof if (reuse == MAT_INITIAL_MATRIX) */
206269db28dcSHong Zhang 
206369db28dcSHong Zhang   /* post receives, send and receive mat->a */
206469db28dcSHong Zhang   /*----------------------------------------*/
206569db28dcSHong Zhang   for (imdex=0; imdex<nrecvs; imdex++) {
206669db28dcSHong Zhang     ierr = MPI_Irecv(rbuf_a[imdex],rbuf_nz[imdex],MPIU_SCALAR,recv_rank[imdex],tag3,comm,r_waits3+imdex);CHKERRQ(ierr);
206769db28dcSHong Zhang   }
206869db28dcSHong Zhang   for (i=0; i<nsends; i++){
206969db28dcSHong Zhang     ierr = MPI_Isend(sbuf_a,nzlocal,MPIU_SCALAR,send_rank[i],tag3,comm,s_waits3+i);CHKERRQ(ierr);
207069db28dcSHong Zhang   }
207169db28dcSHong Zhang   count = nrecvs;
207269db28dcSHong Zhang   while (count) {
207369db28dcSHong Zhang     ierr = MPI_Waitany(nrecvs,r_waits3,&imdex,&recv_status);CHKERRQ(ierr);
207469db28dcSHong Zhang     if (recv_rank[imdex] != recv_status.MPI_SOURCE) SETERRQ2(1, "recv_rank %d != MPI_SOURCE %d",recv_rank[imdex],recv_status.MPI_SOURCE);
207569db28dcSHong Zhang     count--;
207669db28dcSHong Zhang   }
207769db28dcSHong Zhang   if (nsends) {
207869db28dcSHong Zhang     ierr = MPI_Waitall(nsends,s_waits3,send_status);CHKERRQ(ierr);
207969db28dcSHong Zhang   }
208069db28dcSHong Zhang 
208169db28dcSHong Zhang   ierr = PetscFree2(s_waits3,send_status);CHKERRQ(ierr);
208269db28dcSHong Zhang 
208369db28dcSHong Zhang   /* create redundant matrix */
208469db28dcSHong Zhang   /*-------------------------*/
208569db28dcSHong Zhang   if (reuse == MAT_INITIAL_MATRIX){
208669db28dcSHong Zhang     /* compute rownz_max for preallocation */
208769db28dcSHong Zhang     for (imdex=0; imdex<nrecvs; imdex++){
208869db28dcSHong Zhang       j = rowrange[recv_rank[imdex]+1] - rowrange[recv_rank[imdex]];
208969db28dcSHong Zhang       rptr = rbuf_j[imdex];
209069db28dcSHong Zhang       for (i=0; i<j; i++){
209169db28dcSHong Zhang         ncols = rptr[i+1] - rptr[i];
209269db28dcSHong Zhang         if (rownz_max < ncols) rownz_max = ncols;
209369db28dcSHong Zhang       }
209469db28dcSHong Zhang     }
209569db28dcSHong Zhang 
209669db28dcSHong Zhang     ierr = MatCreate(subcomm,&C);CHKERRQ(ierr);
209769db28dcSHong Zhang     ierr = MatSetSizes(C,mlocal_sub,mlocal_sub,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr);
209869db28dcSHong Zhang     ierr = MatSetFromOptions(C);CHKERRQ(ierr);
209969db28dcSHong Zhang     ierr = MatSeqAIJSetPreallocation(C,rownz_max,PETSC_NULL);CHKERRQ(ierr);
210069db28dcSHong Zhang     ierr = MatMPIAIJSetPreallocation(C,rownz_max,PETSC_NULL,rownz_max,PETSC_NULL);CHKERRQ(ierr);
210169db28dcSHong Zhang   } else {
210269db28dcSHong Zhang     C = *matredundant;
210369db28dcSHong Zhang   }
210469db28dcSHong Zhang 
210569db28dcSHong Zhang   /* insert local matrix entries */
210669db28dcSHong Zhang   rptr = sbuf_j;
210769db28dcSHong Zhang   cols = sbuf_j + rend-rstart + 1;
210869db28dcSHong Zhang   vals = sbuf_a;
210969db28dcSHong Zhang   for (i=0; i<rend-rstart; i++){
211069db28dcSHong Zhang     row   = i + rstart;
211169db28dcSHong Zhang     ncols = rptr[i+1] - rptr[i];
211269db28dcSHong Zhang     ierr = MatSetValues(C,1,&row,ncols,cols,vals,INSERT_VALUES);CHKERRQ(ierr);
211369db28dcSHong Zhang     vals += ncols;
211469db28dcSHong Zhang     cols += ncols;
211569db28dcSHong Zhang   }
211669db28dcSHong Zhang   /* insert received matrix entries */
211769db28dcSHong Zhang   for (imdex=0; imdex<nrecvs; imdex++){
211869db28dcSHong Zhang     rstart = rowrange[recv_rank[imdex]];
211969db28dcSHong Zhang     rend   = rowrange[recv_rank[imdex]+1];
212069db28dcSHong Zhang     rptr = rbuf_j[imdex];
212169db28dcSHong Zhang     cols = rbuf_j[imdex] + rend-rstart + 1;
212269db28dcSHong Zhang     vals = rbuf_a[imdex];
212369db28dcSHong Zhang     for (i=0; i<rend-rstart; i++){
212469db28dcSHong Zhang       row   = i + rstart;
212569db28dcSHong Zhang       ncols = rptr[i+1] - rptr[i];
212669db28dcSHong Zhang       ierr = MatSetValues(C,1,&row,ncols,cols,vals,INSERT_VALUES);CHKERRQ(ierr);
212769db28dcSHong Zhang       vals += ncols;
212869db28dcSHong Zhang       cols += ncols;
212969db28dcSHong Zhang     }
213069db28dcSHong Zhang   }
213169db28dcSHong Zhang   ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
213269db28dcSHong Zhang   ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
213369db28dcSHong Zhang   ierr = MatGetSize(C,&M,&N);CHKERRQ(ierr);
213469db28dcSHong Zhang   if (M != mat->rmap.N || N != mat->cmap.N) SETERRQ2(PETSC_ERR_ARG_INCOMP,"redundant mat size %d != input mat size %d",M,mat->rmap.N);
213569db28dcSHong Zhang   if (reuse == MAT_INITIAL_MATRIX){
213669db28dcSHong Zhang     PetscContainer container;
213769db28dcSHong Zhang     *matredundant = C;
213869db28dcSHong Zhang     /* create a supporting struct and attach it to C for reuse */
213938f2d2fdSLisandro Dalcin     ierr = PetscNewLog(C,Mat_Redundant,&redund);CHKERRQ(ierr);
214069db28dcSHong Zhang     ierr = PetscContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr);
214169db28dcSHong Zhang     ierr = PetscContainerSetPointer(container,redund);CHKERRQ(ierr);
214269db28dcSHong Zhang     ierr = PetscObjectCompose((PetscObject)C,"Mat_Redundant",(PetscObject)container);CHKERRQ(ierr);
214369db28dcSHong Zhang     ierr = PetscContainerSetUserDestroy(container,PetscContainerDestroy_MatRedundant);CHKERRQ(ierr);
214469db28dcSHong Zhang 
214569db28dcSHong Zhang     redund->nzlocal = nzlocal;
214669db28dcSHong Zhang     redund->nsends  = nsends;
214769db28dcSHong Zhang     redund->nrecvs  = nrecvs;
214869db28dcSHong Zhang     redund->send_rank = send_rank;
214969db28dcSHong Zhang     redund->sbuf_nz = sbuf_nz;
215069db28dcSHong Zhang     redund->sbuf_j  = sbuf_j;
215169db28dcSHong Zhang     redund->sbuf_a  = sbuf_a;
215269db28dcSHong Zhang     redund->rbuf_j  = rbuf_j;
215369db28dcSHong Zhang     redund->rbuf_a  = rbuf_a;
215469db28dcSHong Zhang 
215569db28dcSHong Zhang     redund->MatDestroy = C->ops->destroy;
215669db28dcSHong Zhang     C->ops->destroy    = MatDestroy_MatRedundant;
215769db28dcSHong Zhang   }
215869db28dcSHong Zhang   PetscFunctionReturn(0);
215969db28dcSHong Zhang }
216069db28dcSHong Zhang 
216103bc72f1SMatthew Knepley #undef __FUNCT__
216203bc72f1SMatthew Knepley #define __FUNCT__ "MatGetRowMin_MPIAIJ"
216303bc72f1SMatthew Knepley PetscErrorCode MatGetRowMin_MPIAIJ(Mat A, Vec v, PetscInt idx[])
216403bc72f1SMatthew Knepley {
216503bc72f1SMatthew Knepley   Mat_MPIAIJ    *mat    = (Mat_MPIAIJ *) A->data;
216603bc72f1SMatthew Knepley   PetscInt       n      = A->rmap.n;
216703bc72f1SMatthew Knepley   PetscInt       cstart = A->cmap.rstart;
216803bc72f1SMatthew Knepley   PetscInt      *cmap   = mat->garray;
216903bc72f1SMatthew Knepley   PetscInt      *diagIdx, *offdiagIdx;
217003bc72f1SMatthew Knepley   Vec            diagV, offdiagV;
217103bc72f1SMatthew Knepley   PetscScalar   *a, *diagA, *offdiagA;
217203bc72f1SMatthew Knepley   PetscInt       r;
217303bc72f1SMatthew Knepley   PetscErrorCode ierr;
217403bc72f1SMatthew Knepley 
217503bc72f1SMatthew Knepley   PetscFunctionBegin;
217603bc72f1SMatthew Knepley   ierr = PetscMalloc2(n,PetscInt,&diagIdx,n,PetscInt,&offdiagIdx);CHKERRQ(ierr);
2177e64afeacSLisandro Dalcin   ierr = VecCreateSeq(((PetscObject)A)->comm, n, &diagV);CHKERRQ(ierr);
2178e64afeacSLisandro Dalcin   ierr = VecCreateSeq(((PetscObject)A)->comm, n, &offdiagV);CHKERRQ(ierr);
217903bc72f1SMatthew Knepley   ierr = MatGetRowMin(mat->A, diagV,    diagIdx);CHKERRQ(ierr);
218003bc72f1SMatthew Knepley   ierr = MatGetRowMin(mat->B, offdiagV, offdiagIdx);CHKERRQ(ierr);
218103bc72f1SMatthew Knepley   ierr = VecGetArray(v,        &a);CHKERRQ(ierr);
218203bc72f1SMatthew Knepley   ierr = VecGetArray(diagV,    &diagA);CHKERRQ(ierr);
218303bc72f1SMatthew Knepley   ierr = VecGetArray(offdiagV, &offdiagA);CHKERRQ(ierr);
218403bc72f1SMatthew Knepley   for(r = 0; r < n; ++r) {
2185028cd4eaSSatish Balay     if (PetscAbsScalar(diagA[r]) <= PetscAbsScalar(offdiagA[r])) {
218603bc72f1SMatthew Knepley       a[r]   = diagA[r];
218703bc72f1SMatthew Knepley       idx[r] = cstart + diagIdx[r];
218803bc72f1SMatthew Knepley     } else {
218903bc72f1SMatthew Knepley       a[r]   = offdiagA[r];
219003bc72f1SMatthew Knepley       idx[r] = cmap[offdiagIdx[r]];
219103bc72f1SMatthew Knepley     }
219203bc72f1SMatthew Knepley   }
219303bc72f1SMatthew Knepley   ierr = VecRestoreArray(v,        &a);CHKERRQ(ierr);
219403bc72f1SMatthew Knepley   ierr = VecRestoreArray(diagV,    &diagA);CHKERRQ(ierr);
219503bc72f1SMatthew Knepley   ierr = VecRestoreArray(offdiagV, &offdiagA);CHKERRQ(ierr);
219603bc72f1SMatthew Knepley   ierr = VecDestroy(diagV);CHKERRQ(ierr);
219703bc72f1SMatthew Knepley   ierr = VecDestroy(offdiagV);CHKERRQ(ierr);
219803bc72f1SMatthew Knepley   ierr = PetscFree2(diagIdx, offdiagIdx);CHKERRQ(ierr);
219903bc72f1SMatthew Knepley   PetscFunctionReturn(0);
220003bc72f1SMatthew Knepley }
220103bc72f1SMatthew Knepley 
22025494a064SHong Zhang #undef __FUNCT__
2203829201f2SHong Zhang #define __FUNCT__ "MatGetSeqNonzerostructure_MPIAIJ"
2204829201f2SHong Zhang PetscErrorCode MatGetSeqNonzerostructure_MPIAIJ(Mat mat,Mat *newmat[])
22055494a064SHong Zhang {
22065494a064SHong Zhang   PetscErrorCode ierr;
22075494a064SHong Zhang 
22085494a064SHong Zhang   PetscFunctionBegin;
22095494a064SHong Zhang   ierr = MatGetSubMatrix_MPIAIJ_All(mat,MAT_DO_NOT_GET_VALUES,MAT_INITIAL_MATRIX,newmat);CHKERRQ(ierr);
22105494a064SHong Zhang   PetscFunctionReturn(0);
22115494a064SHong Zhang }
22125494a064SHong Zhang 
22138a729477SBarry Smith /* -------------------------------------------------------------------*/
2214cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ,
2215cda55fadSBarry Smith        MatGetRow_MPIAIJ,
2216cda55fadSBarry Smith        MatRestoreRow_MPIAIJ,
2217cda55fadSBarry Smith        MatMult_MPIAIJ,
221897304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ,
22197c922b88SBarry Smith        MatMultTranspose_MPIAIJ,
22207c922b88SBarry Smith        MatMultTransposeAdd_MPIAIJ,
2221103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL
2222103bf8bdSMatthew Knepley        MatSolve_MPIAIJ,
2223103bf8bdSMatthew Knepley #else
2224cda55fadSBarry Smith        0,
2225103bf8bdSMatthew Knepley #endif
2226cda55fadSBarry Smith        0,
2227cda55fadSBarry Smith        0,
222897304618SKris Buschelman /*10*/ 0,
2229cda55fadSBarry Smith        0,
2230cda55fadSBarry Smith        0,
223144a69424SLois Curfman McInnes        MatRelax_MPIAIJ,
2232b7c46309SBarry Smith        MatTranspose_MPIAIJ,
223397304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ,
2234cda55fadSBarry Smith        MatEqual_MPIAIJ,
2235cda55fadSBarry Smith        MatGetDiagonal_MPIAIJ,
2236cda55fadSBarry Smith        MatDiagonalScale_MPIAIJ,
2237cda55fadSBarry Smith        MatNorm_MPIAIJ,
223897304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ,
2239cda55fadSBarry Smith        MatAssemblyEnd_MPIAIJ,
22401eb62cbbSBarry Smith        0,
2241cda55fadSBarry Smith        MatSetOption_MPIAIJ,
2242cda55fadSBarry Smith        MatZeroEntries_MPIAIJ,
224397304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ,
2244cda55fadSBarry Smith        0,
2245103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL
2246103bf8bdSMatthew Knepley        MatLUFactorNumeric_MPIAIJ,
2247103bf8bdSMatthew Knepley #else
2248cda55fadSBarry Smith        0,
2249103bf8bdSMatthew Knepley #endif
2250cda55fadSBarry Smith        0,
2251cda55fadSBarry Smith        0,
225297304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ,
2253103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL
2254103bf8bdSMatthew Knepley        MatILUFactorSymbolic_MPIAIJ,
2255103bf8bdSMatthew Knepley #else
2256cda55fadSBarry Smith        0,
2257103bf8bdSMatthew Knepley #endif
2258cda55fadSBarry Smith        0,
2259cda55fadSBarry Smith        0,
2260cda55fadSBarry Smith        0,
226197304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ,
2262cda55fadSBarry Smith        0,
2263cda55fadSBarry Smith        0,
2264cda55fadSBarry Smith        0,
2265cda55fadSBarry Smith        0,
226697304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ,
2267cda55fadSBarry Smith        MatGetSubMatrices_MPIAIJ,
2268cda55fadSBarry Smith        MatIncreaseOverlap_MPIAIJ,
2269cda55fadSBarry Smith        MatGetValues_MPIAIJ,
2270cb5b572fSBarry Smith        MatCopy_MPIAIJ,
22718c07d4e3SBarry Smith /*45*/ 0,
2272cda55fadSBarry Smith        MatScale_MPIAIJ,
2273cda55fadSBarry Smith        0,
2274cda55fadSBarry Smith        0,
2275cda55fadSBarry Smith        0,
2276521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ,
2277cda55fadSBarry Smith        0,
2278cda55fadSBarry Smith        0,
2279cda55fadSBarry Smith        0,
2280cda55fadSBarry Smith        0,
228197304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ,
2282cda55fadSBarry Smith        0,
2283cda55fadSBarry Smith        MatSetUnfactored_MPIAIJ,
228442e855d1Svictor        MatPermute_MPIAIJ,
2285cda55fadSBarry Smith        0,
228697304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ,
2287e03a110bSBarry Smith        MatDestroy_MPIAIJ,
2288e03a110bSBarry Smith        MatView_MPIAIJ,
2289357abbc8SBarry Smith        0,
2290a2243be0SBarry Smith        0,
229197304618SKris Buschelman /*65*/ 0,
2292a2243be0SBarry Smith        0,
2293a2243be0SBarry Smith        0,
2294a2243be0SBarry Smith        0,
2295a2243be0SBarry Smith        0,
229697304618SKris Buschelman /*70*/ 0,
2297a2243be0SBarry Smith        0,
2298a2243be0SBarry Smith        MatSetColoring_MPIAIJ,
2299dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC)
2300779c1a83SBarry Smith        MatSetValuesAdic_MPIAIJ,
2301dcf5cc72SBarry Smith #else
2302dcf5cc72SBarry Smith        0,
2303dcf5cc72SBarry Smith #endif
230497304618SKris Buschelman        MatSetValuesAdifor_MPIAIJ,
230597304618SKris Buschelman /*75*/ 0,
230697304618SKris Buschelman        0,
230797304618SKris Buschelman        0,
230897304618SKris Buschelman        0,
230997304618SKris Buschelman        0,
231097304618SKris Buschelman /*80*/ 0,
231197304618SKris Buschelman        0,
231297304618SKris Buschelman        0,
231397304618SKris Buschelman        0,
231441acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ,
23156284ec50SHong Zhang        0,
23166284ec50SHong Zhang        0,
23176284ec50SHong Zhang        0,
23186284ec50SHong Zhang        0,
2319865e5f61SKris Buschelman        0,
2320865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ,
232126be0446SHong Zhang        MatMatMultSymbolic_MPIAIJ_MPIAIJ,
232226be0446SHong Zhang        MatMatMultNumeric_MPIAIJ_MPIAIJ,
23237a7894deSKris Buschelman        MatPtAP_Basic,
23247a7894deSKris Buschelman        MatPtAPSymbolic_MPIAIJ,
23257a7894deSKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ,
23267a7894deSKris Buschelman        0,
23277a7894deSKris Buschelman        0,
23287a7894deSKris Buschelman        0,
23297a7894deSKris Buschelman        0,
23307a7894deSKris Buschelman /*100*/0,
2331865e5f61SKris Buschelman        MatPtAPSymbolic_MPIAIJ_MPIAIJ,
23327a7894deSKris Buschelman        MatPtAPNumeric_MPIAIJ_MPIAIJ,
23332fd7e33dSBarry Smith        MatConjugate_MPIAIJ,
23342fd7e33dSBarry Smith        0,
233599cafbc1SBarry Smith /*105*/MatSetValuesRow_MPIAIJ,
233699cafbc1SBarry Smith        MatRealPart_MPIAIJ,
233769db28dcSHong Zhang        MatImaginaryPart_MPIAIJ,
233869db28dcSHong Zhang        0,
233969db28dcSHong Zhang        0,
234069db28dcSHong Zhang /*110*/0,
234103bc72f1SMatthew Knepley        MatGetRedundantMatrix_MPIAIJ,
23425494a064SHong Zhang        MatGetRowMin_MPIAIJ,
23435494a064SHong Zhang        0,
23445494a064SHong Zhang        0,
2345829201f2SHong Zhang /*115*/MatGetSeqNonzerostructure_MPIAIJ};
234636ce4990SBarry Smith 
23472e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/
23482e8a6d31SBarry Smith 
2349fb2e594dSBarry Smith EXTERN_C_BEGIN
23504a2ae208SSatish Balay #undef __FUNCT__
23514a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ"
2352be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatStoreValues_MPIAIJ(Mat mat)
23532e8a6d31SBarry Smith {
23542e8a6d31SBarry Smith   Mat_MPIAIJ     *aij = (Mat_MPIAIJ *)mat->data;
2355dfbe8321SBarry Smith   PetscErrorCode ierr;
23562e8a6d31SBarry Smith 
23572e8a6d31SBarry Smith   PetscFunctionBegin;
23582e8a6d31SBarry Smith   ierr = MatStoreValues(aij->A);CHKERRQ(ierr);
23592e8a6d31SBarry Smith   ierr = MatStoreValues(aij->B);CHKERRQ(ierr);
23602e8a6d31SBarry Smith   PetscFunctionReturn(0);
23612e8a6d31SBarry Smith }
2362fb2e594dSBarry Smith EXTERN_C_END
23632e8a6d31SBarry Smith 
2364fb2e594dSBarry Smith EXTERN_C_BEGIN
23654a2ae208SSatish Balay #undef __FUNCT__
23664a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ"
2367be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatRetrieveValues_MPIAIJ(Mat mat)
23682e8a6d31SBarry Smith {
23692e8a6d31SBarry Smith   Mat_MPIAIJ     *aij = (Mat_MPIAIJ *)mat->data;
2370dfbe8321SBarry Smith   PetscErrorCode ierr;
23712e8a6d31SBarry Smith 
23722e8a6d31SBarry Smith   PetscFunctionBegin;
23732e8a6d31SBarry Smith   ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr);
23742e8a6d31SBarry Smith   ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr);
23752e8a6d31SBarry Smith   PetscFunctionReturn(0);
23762e8a6d31SBarry Smith }
2377fb2e594dSBarry Smith EXTERN_C_END
23788a729477SBarry Smith 
2379e090d566SSatish Balay #include "petscpc.h"
238027508adbSBarry Smith EXTERN_C_BEGIN
23814a2ae208SSatish Balay #undef __FUNCT__
2382a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ"
2383be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[])
2384a23d5eceSKris Buschelman {
2385a23d5eceSKris Buschelman   Mat_MPIAIJ     *b;
2386dfbe8321SBarry Smith   PetscErrorCode ierr;
2387b1d57f15SBarry Smith   PetscInt       i;
2388a23d5eceSKris Buschelman 
2389a23d5eceSKris Buschelman   PetscFunctionBegin;
2390a23d5eceSKris Buschelman   B->preallocated = PETSC_TRUE;
2391a23d5eceSKris Buschelman   if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5;
2392a23d5eceSKris Buschelman   if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2;
239377431f27SBarry Smith   if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz);
239477431f27SBarry Smith   if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz);
2395899cda47SBarry Smith 
2396899cda47SBarry Smith   B->rmap.bs = B->cmap.bs = 1;
23976148ca0dSBarry Smith   ierr = PetscMapSetUp(&B->rmap);CHKERRQ(ierr);
23986148ca0dSBarry Smith   ierr = PetscMapSetUp(&B->cmap);CHKERRQ(ierr);
2399a23d5eceSKris Buschelman   if (d_nnz) {
2400899cda47SBarry Smith     for (i=0; i<B->rmap.n; i++) {
240177431f27SBarry Smith       if (d_nnz[i] < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"d_nnz cannot be less than 0: local row %D value %D",i,d_nnz[i]);
2402a23d5eceSKris Buschelman     }
2403a23d5eceSKris Buschelman   }
2404a23d5eceSKris Buschelman   if (o_nnz) {
2405899cda47SBarry Smith     for (i=0; i<B->rmap.n; i++) {
240677431f27SBarry Smith       if (o_nnz[i] < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"o_nnz cannot be less than 0: local row %D value %D",i,o_nnz[i]);
2407a23d5eceSKris Buschelman     }
2408a23d5eceSKris Buschelman   }
2409a23d5eceSKris Buschelman   b = (Mat_MPIAIJ*)B->data;
2410899cda47SBarry Smith 
2411899cda47SBarry Smith   /* Explicitly create 2 MATSEQAIJ matrices. */
2412899cda47SBarry Smith   ierr = MatCreate(PETSC_COMM_SELF,&b->A);CHKERRQ(ierr);
2413899cda47SBarry Smith   ierr = MatSetSizes(b->A,B->rmap.n,B->cmap.n,B->rmap.n,B->cmap.n);CHKERRQ(ierr);
2414899cda47SBarry Smith   ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr);
2415899cda47SBarry Smith   ierr = PetscLogObjectParent(B,b->A);CHKERRQ(ierr);
2416899cda47SBarry Smith   ierr = MatCreate(PETSC_COMM_SELF,&b->B);CHKERRQ(ierr);
2417899cda47SBarry Smith   ierr = MatSetSizes(b->B,B->rmap.n,B->cmap.N,B->rmap.n,B->cmap.N);CHKERRQ(ierr);
2418899cda47SBarry Smith   ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr);
2419899cda47SBarry Smith   ierr = PetscLogObjectParent(B,b->B);CHKERRQ(ierr);
2420899cda47SBarry Smith 
2421c60e587dSKris Buschelman   ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr);
2422c60e587dSKris Buschelman   ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr);
2423a23d5eceSKris Buschelman 
2424a23d5eceSKris Buschelman   PetscFunctionReturn(0);
2425a23d5eceSKris Buschelman }
2426a23d5eceSKris Buschelman EXTERN_C_END
2427a23d5eceSKris Buschelman 
24284a2ae208SSatish Balay #undef __FUNCT__
24294a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ"
2430dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat)
2431d6dfbf8fSBarry Smith {
2432d6dfbf8fSBarry Smith   Mat            mat;
2433416022c9SBarry Smith   Mat_MPIAIJ     *a,*oldmat = (Mat_MPIAIJ*)matin->data;
2434dfbe8321SBarry Smith   PetscErrorCode ierr;
2435d6dfbf8fSBarry Smith 
24363a40ed3dSBarry Smith   PetscFunctionBegin;
2437416022c9SBarry Smith   *newmat       = 0;
24387adad957SLisandro Dalcin   ierr = MatCreate(((PetscObject)matin)->comm,&mat);CHKERRQ(ierr);
2439899cda47SBarry Smith   ierr = MatSetSizes(mat,matin->rmap.n,matin->cmap.n,matin->rmap.N,matin->cmap.N);CHKERRQ(ierr);
24407adad957SLisandro Dalcin   ierr = MatSetType(mat,((PetscObject)matin)->type_name);CHKERRQ(ierr);
24411d5dac46SHong Zhang   ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr);
2442273d9f13SBarry Smith   a    = (Mat_MPIAIJ*)mat->data;
2443e1b6402fSHong Zhang 
2444d6dfbf8fSBarry Smith   mat->factor       = matin->factor;
2445899cda47SBarry Smith   mat->rmap.bs      = matin->rmap.bs;
2446c456f294SBarry Smith   mat->assembled    = PETSC_TRUE;
2447e7641de0SSatish Balay   mat->insertmode   = NOT_SET_VALUES;
2448273d9f13SBarry Smith   mat->preallocated = PETSC_TRUE;
2449d6dfbf8fSBarry Smith 
245017699dbbSLois Curfman McInnes   a->size           = oldmat->size;
245117699dbbSLois Curfman McInnes   a->rank           = oldmat->rank;
2452e7641de0SSatish Balay   a->donotstash     = oldmat->donotstash;
2453e7641de0SSatish Balay   a->roworiented    = oldmat->roworiented;
2454e7641de0SSatish Balay   a->rowindices     = 0;
2455bcd2baecSBarry Smith   a->rowvalues      = 0;
2456bcd2baecSBarry Smith   a->getrowactive   = PETSC_FALSE;
2457d6dfbf8fSBarry Smith 
24587adad957SLisandro Dalcin   ierr = PetscMapCopy(((PetscObject)mat)->comm,&matin->rmap,&mat->rmap);CHKERRQ(ierr);
24597adad957SLisandro Dalcin   ierr = PetscMapCopy(((PetscObject)mat)->comm,&matin->cmap,&mat->cmap);CHKERRQ(ierr);
2460899cda47SBarry Smith 
24617adad957SLisandro Dalcin   ierr = MatStashCreate_Private(((PetscObject)matin)->comm,1,&mat->stash);CHKERRQ(ierr);
24622ee70a88SLois Curfman McInnes   if (oldmat->colmap) {
2463aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
24640f5bd95cSBarry Smith     ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr);
2465b1fc9764SSatish Balay #else
2466899cda47SBarry Smith     ierr = PetscMalloc((mat->cmap.N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr);
2467899cda47SBarry Smith     ierr = PetscLogObjectMemory(mat,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr);
2468899cda47SBarry Smith     ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr);
2469b1fc9764SSatish Balay #endif
2470416022c9SBarry Smith   } else a->colmap = 0;
24713f41c07dSBarry Smith   if (oldmat->garray) {
2472b1d57f15SBarry Smith     PetscInt len;
2473899cda47SBarry Smith     len  = oldmat->B->cmap.n;
2474b1d57f15SBarry Smith     ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr);
247552e6d16bSBarry Smith     ierr = PetscLogObjectMemory(mat,len*sizeof(PetscInt));CHKERRQ(ierr);
2476b1d57f15SBarry Smith     if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); }
2477416022c9SBarry Smith   } else a->garray = 0;
2478d6dfbf8fSBarry Smith 
2479416022c9SBarry Smith   ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr);
248052e6d16bSBarry Smith   ierr = PetscLogObjectParent(mat,a->lvec);CHKERRQ(ierr);
2481a56f8943SBarry Smith   ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr);
248252e6d16bSBarry Smith   ierr = PetscLogObjectParent(mat,a->Mvctx);CHKERRQ(ierr);
24832e8a6d31SBarry Smith   ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr);
248452e6d16bSBarry Smith   ierr = PetscLogObjectParent(mat,a->A);CHKERRQ(ierr);
24852e8a6d31SBarry Smith   ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr);
248652e6d16bSBarry Smith   ierr = PetscLogObjectParent(mat,a->B);CHKERRQ(ierr);
24877adad957SLisandro Dalcin   ierr = PetscFListDuplicate(((PetscObject)matin)->qlist,&((PetscObject)mat)->qlist);CHKERRQ(ierr);
24888a729477SBarry Smith   *newmat = mat;
24893a40ed3dSBarry Smith   PetscFunctionReturn(0);
24908a729477SBarry Smith }
2491416022c9SBarry Smith 
2492e090d566SSatish Balay #include "petscsys.h"
2493416022c9SBarry Smith 
24944a2ae208SSatish Balay #undef __FUNCT__
24954a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ"
2496f69a0ea3SMatthew Knepley PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer, MatType type,Mat *newmat)
2497416022c9SBarry Smith {
2498d65a2f8fSBarry Smith   Mat            A;
249987828ca2SBarry Smith   PetscScalar    *vals,*svals;
250019bcc07fSBarry Smith   MPI_Comm       comm = ((PetscObject)viewer)->comm;
2501416022c9SBarry Smith   MPI_Status     status;
25026849ba73SBarry Smith   PetscErrorCode ierr;
2503dc231df0SBarry Smith   PetscMPIInt    rank,size,tag = ((PetscObject)viewer)->tag,maxnz;
2504167e7480SBarry Smith   PetscInt       i,nz,j,rstart,rend,mmax;
2505b1d57f15SBarry Smith   PetscInt       header[4],*rowlengths = 0,M,N,m,*cols;
2506910ba992SMatthew Knepley   PetscInt       *ourlens = PETSC_NULL,*procsnz = PETSC_NULL,*offlens = PETSC_NULL,jj,*mycols,*smycols;
2507dc231df0SBarry Smith   PetscInt       cend,cstart,n,*rowners;
2508b1d57f15SBarry Smith   int            fd;
2509416022c9SBarry Smith 
25103a40ed3dSBarry Smith   PetscFunctionBegin;
25111dab6e02SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
25121dab6e02SBarry Smith   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
251317699dbbSLois Curfman McInnes   if (!rank) {
2514b0a32e0cSBarry Smith     ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr);
25150752156aSBarry Smith     ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr);
2516552e946dSBarry Smith     if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object");
25176c5fab8fSBarry Smith   }
25186c5fab8fSBarry Smith 
2519b1d57f15SBarry Smith   ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr);
2520416022c9SBarry Smith   M = header[1]; N = header[2];
2521416022c9SBarry Smith   /* determine ownership of all rows */
252229cdbbc8SSatish Balay   m    = M/size + ((M % size) > rank);
2523dc231df0SBarry Smith   ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr);
2524dc231df0SBarry Smith   ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr);
2525167e7480SBarry Smith 
2526167e7480SBarry Smith   /* First process needs enough room for process with most rows */
2527167e7480SBarry Smith   if (!rank) {
2528167e7480SBarry Smith     mmax       = rowners[1];
2529167e7480SBarry Smith     for (i=2; i<size; i++) {
2530167e7480SBarry Smith       mmax = PetscMax(mmax,rowners[i]);
2531167e7480SBarry Smith     }
2532167e7480SBarry Smith   } else mmax = m;
2533167e7480SBarry Smith 
2534416022c9SBarry Smith   rowners[0] = 0;
253517699dbbSLois Curfman McInnes   for (i=2; i<=size; i++) {
2536416022c9SBarry Smith     rowners[i] += rowners[i-1];
2537416022c9SBarry Smith   }
253817699dbbSLois Curfman McInnes   rstart = rowners[rank];
253917699dbbSLois Curfman McInnes   rend   = rowners[rank+1];
2540416022c9SBarry Smith 
2541416022c9SBarry Smith   /* distribute row lengths to all processors */
2542167e7480SBarry Smith   ierr    = PetscMalloc2(mmax,PetscInt,&ourlens,mmax,PetscInt,&offlens);CHKERRQ(ierr);
254317699dbbSLois Curfman McInnes   if (!rank) {
2544dc231df0SBarry Smith     ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr);
2545dc231df0SBarry Smith     ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr);
2546b1d57f15SBarry Smith     ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr);
2547b1d57f15SBarry Smith     ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr);
2548dc231df0SBarry Smith     for (j=0; j<m; j++) {
2549dc231df0SBarry Smith       procsnz[0] += ourlens[j];
2550dc231df0SBarry Smith     }
2551dc231df0SBarry Smith     for (i=1; i<size; i++) {
2552dc231df0SBarry Smith       ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr);
2553dc231df0SBarry Smith       /* calculate the number of nonzeros on each processor */
2554dc231df0SBarry Smith       for (j=0; j<rowners[i+1]-rowners[i]; j++) {
2555416022c9SBarry Smith         procsnz[i] += rowlengths[j];
2556416022c9SBarry Smith       }
2557dc231df0SBarry Smith       ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr);
2558416022c9SBarry Smith     }
2559606d414cSSatish Balay     ierr = PetscFree(rowlengths);CHKERRQ(ierr);
2560dc231df0SBarry Smith   } else {
2561dc231df0SBarry Smith     ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr);
2562dc231df0SBarry Smith   }
2563416022c9SBarry Smith 
2564dc231df0SBarry Smith   if (!rank) {
2565416022c9SBarry Smith     /* determine max buffer needed and allocate it */
2566416022c9SBarry Smith     maxnz = 0;
25678a8e0b3aSBarry Smith     for (i=0; i<size; i++) {
25680452661fSBarry Smith       maxnz = PetscMax(maxnz,procsnz[i]);
2569416022c9SBarry Smith     }
2570b1d57f15SBarry Smith     ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr);
2571416022c9SBarry Smith 
2572416022c9SBarry Smith     /* read in my part of the matrix column indices  */
2573416022c9SBarry Smith     nz   = procsnz[0];
2574b1d57f15SBarry Smith     ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr);
25750752156aSBarry Smith     ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr);
2576d65a2f8fSBarry Smith 
2577d65a2f8fSBarry Smith     /* read in every one elses and ship off */
257817699dbbSLois Curfman McInnes     for (i=1; i<size; i++) {
2579d65a2f8fSBarry Smith       nz   = procsnz[i];
25800752156aSBarry Smith       ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr);
2581b1d57f15SBarry Smith       ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr);
2582d65a2f8fSBarry Smith     }
2583606d414cSSatish Balay     ierr = PetscFree(cols);CHKERRQ(ierr);
25843a40ed3dSBarry Smith   } else {
2585416022c9SBarry Smith     /* determine buffer space needed for message */
2586416022c9SBarry Smith     nz = 0;
2587416022c9SBarry Smith     for (i=0; i<m; i++) {
2588416022c9SBarry Smith       nz += ourlens[i];
2589416022c9SBarry Smith     }
2590dc231df0SBarry Smith     ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr);
2591416022c9SBarry Smith 
2592416022c9SBarry Smith     /* receive message of column indices*/
2593b1d57f15SBarry Smith     ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr);
2594b1d57f15SBarry Smith     ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr);
259529bbc08cSBarry Smith     if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file");
2596416022c9SBarry Smith   }
2597416022c9SBarry Smith 
2598b362ba68SBarry Smith   /* determine column ownership if matrix is not square */
2599b362ba68SBarry Smith   if (N != M) {
2600b362ba68SBarry Smith     n      = N/size + ((N % size) > rank);
2601b1d57f15SBarry Smith     ierr   = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr);
2602b362ba68SBarry Smith     cstart = cend - n;
2603b362ba68SBarry Smith   } else {
2604b362ba68SBarry Smith     cstart = rstart;
2605b362ba68SBarry Smith     cend   = rend;
2606fb2e594dSBarry Smith     n      = cend - cstart;
2607b362ba68SBarry Smith   }
2608b362ba68SBarry Smith 
2609416022c9SBarry Smith   /* loop over local rows, determining number of off diagonal entries */
2610b1d57f15SBarry Smith   ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr);
2611416022c9SBarry Smith   jj = 0;
2612416022c9SBarry Smith   for (i=0; i<m; i++) {
2613416022c9SBarry Smith     for (j=0; j<ourlens[i]; j++) {
2614b362ba68SBarry Smith       if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++;
2615416022c9SBarry Smith       jj++;
2616416022c9SBarry Smith     }
2617416022c9SBarry Smith   }
2618d65a2f8fSBarry Smith 
2619d65a2f8fSBarry Smith   /* create our matrix */
2620416022c9SBarry Smith   for (i=0; i<m; i++) {
2621416022c9SBarry Smith     ourlens[i] -= offlens[i];
2622416022c9SBarry Smith   }
2623f69a0ea3SMatthew Knepley   ierr = MatCreate(comm,&A);CHKERRQ(ierr);
2624f69a0ea3SMatthew Knepley   ierr = MatSetSizes(A,m,n,M,N);CHKERRQ(ierr);
2625d10c748bSKris Buschelman   ierr = MatSetType(A,type);CHKERRQ(ierr);
2626d10c748bSKris Buschelman   ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr);
2627d10c748bSKris Buschelman 
2628d65a2f8fSBarry Smith   for (i=0; i<m; i++) {
2629d65a2f8fSBarry Smith     ourlens[i] += offlens[i];
2630d65a2f8fSBarry Smith   }
2631416022c9SBarry Smith 
263217699dbbSLois Curfman McInnes   if (!rank) {
2633906b51c7SHong Zhang     ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr);
2634416022c9SBarry Smith 
2635416022c9SBarry Smith     /* read in my part of the matrix numerical values  */
2636416022c9SBarry Smith     nz   = procsnz[0];
26370752156aSBarry Smith     ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr);
2638d65a2f8fSBarry Smith 
2639d65a2f8fSBarry Smith     /* insert into matrix */
2640d65a2f8fSBarry Smith     jj      = rstart;
2641d65a2f8fSBarry Smith     smycols = mycols;
2642d65a2f8fSBarry Smith     svals   = vals;
2643d65a2f8fSBarry Smith     for (i=0; i<m; i++) {
2644dc231df0SBarry Smith       ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr);
2645d65a2f8fSBarry Smith       smycols += ourlens[i];
2646d65a2f8fSBarry Smith       svals   += ourlens[i];
2647d65a2f8fSBarry Smith       jj++;
2648416022c9SBarry Smith     }
2649416022c9SBarry Smith 
2650d65a2f8fSBarry Smith     /* read in other processors and ship out */
265117699dbbSLois Curfman McInnes     for (i=1; i<size; i++) {
2652416022c9SBarry Smith       nz   = procsnz[i];
26530752156aSBarry Smith       ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr);
26547adad957SLisandro Dalcin       ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,((PetscObject)A)->tag,comm);CHKERRQ(ierr);
2655416022c9SBarry Smith     }
2656606d414cSSatish Balay     ierr = PetscFree(procsnz);CHKERRQ(ierr);
26573a40ed3dSBarry Smith   } else {
2658d65a2f8fSBarry Smith     /* receive numeric values */
265987828ca2SBarry Smith     ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr);
2660416022c9SBarry Smith 
2661d65a2f8fSBarry Smith     /* receive message of values*/
26627adad957SLisandro Dalcin     ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,((PetscObject)A)->tag,comm,&status);CHKERRQ(ierr);
2663ca161407SBarry Smith     ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr);
266429bbc08cSBarry Smith     if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file");
2665d65a2f8fSBarry Smith 
2666d65a2f8fSBarry Smith     /* insert into matrix */
2667d65a2f8fSBarry Smith     jj      = rstart;
2668d65a2f8fSBarry Smith     smycols = mycols;
2669d65a2f8fSBarry Smith     svals   = vals;
2670d65a2f8fSBarry Smith     for (i=0; i<m; i++) {
2671dc231df0SBarry Smith       ierr     = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr);
2672d65a2f8fSBarry Smith       smycols += ourlens[i];
2673d65a2f8fSBarry Smith       svals   += ourlens[i];
2674d65a2f8fSBarry Smith       jj++;
2675d65a2f8fSBarry Smith     }
2676d65a2f8fSBarry Smith   }
2677dc231df0SBarry Smith   ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr);
2678606d414cSSatish Balay   ierr = PetscFree(vals);CHKERRQ(ierr);
2679606d414cSSatish Balay   ierr = PetscFree(mycols);CHKERRQ(ierr);
2680606d414cSSatish Balay   ierr = PetscFree(rowners);CHKERRQ(ierr);
2681d65a2f8fSBarry Smith 
26826d4a8577SBarry Smith   ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
26836d4a8577SBarry Smith   ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2684d10c748bSKris Buschelman   *newmat = A;
26853a40ed3dSBarry Smith   PetscFunctionReturn(0);
2686416022c9SBarry Smith }
2687a0ff6018SBarry Smith 
26884a2ae208SSatish Balay #undef __FUNCT__
26894a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ"
2690a0ff6018SBarry Smith /*
269129da9460SBarry Smith     Not great since it makes two copies of the submatrix, first an SeqAIJ
269229da9460SBarry Smith   in local and then by concatenating the local matrices the end result.
269329da9460SBarry Smith   Writing it directly would be much like MatGetSubMatrices_MPIAIJ()
2694a0ff6018SBarry Smith */
2695b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat)
2696a0ff6018SBarry Smith {
2697dfbe8321SBarry Smith   PetscErrorCode ierr;
269832dcc486SBarry Smith   PetscMPIInt    rank,size;
2699b1d57f15SBarry Smith   PetscInt       i,m,n,rstart,row,rend,nz,*cwork,j;
2700b1d57f15SBarry Smith   PetscInt       *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal;
2701fee21e36SBarry Smith   Mat            *local,M,Mreuse;
270287828ca2SBarry Smith   PetscScalar    *vwork,*aa;
27037adad957SLisandro Dalcin   MPI_Comm       comm = ((PetscObject)mat)->comm;
270400e6dbe6SBarry Smith   Mat_SeqAIJ     *aij;
27057e2c5f70SBarry Smith 
2706a0ff6018SBarry Smith 
2707a0ff6018SBarry Smith   PetscFunctionBegin;
27081dab6e02SBarry Smith   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
27091dab6e02SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
271000e6dbe6SBarry Smith 
2711fee21e36SBarry Smith   if (call ==  MAT_REUSE_MATRIX) {
2712fee21e36SBarry Smith     ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr);
2713e005ede5SBarry Smith     if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse");
2714fee21e36SBarry Smith     local = &Mreuse;
2715fee21e36SBarry Smith     ierr  = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr);
2716fee21e36SBarry Smith   } else {
2717a0ff6018SBarry Smith     ierr   = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr);
2718fee21e36SBarry Smith     Mreuse = *local;
2719606d414cSSatish Balay     ierr   = PetscFree(local);CHKERRQ(ierr);
2720fee21e36SBarry Smith   }
2721a0ff6018SBarry Smith 
2722a0ff6018SBarry Smith   /*
2723a0ff6018SBarry Smith       m - number of local rows
2724a0ff6018SBarry Smith       n - number of columns (same on all processors)
2725a0ff6018SBarry Smith       rstart - first row in new global matrix generated
2726a0ff6018SBarry Smith   */
2727fee21e36SBarry Smith   ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr);
2728a0ff6018SBarry Smith   if (call == MAT_INITIAL_MATRIX) {
2729fee21e36SBarry Smith     aij = (Mat_SeqAIJ*)(Mreuse)->data;
273000e6dbe6SBarry Smith     ii  = aij->i;
273100e6dbe6SBarry Smith     jj  = aij->j;
273200e6dbe6SBarry Smith 
2733a0ff6018SBarry Smith     /*
273400e6dbe6SBarry Smith         Determine the number of non-zeros in the diagonal and off-diagonal
273500e6dbe6SBarry Smith         portions of the matrix in order to do correct preallocation
2736a0ff6018SBarry Smith     */
273700e6dbe6SBarry Smith 
273800e6dbe6SBarry Smith     /* first get start and end of "diagonal" columns */
27396a6a5d1dSBarry Smith     if (csize == PETSC_DECIDE) {
2740ab50ec6bSBarry Smith       ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr);
2741ab50ec6bSBarry Smith       if (mglobal == n) { /* square matrix */
2742e2c4fddaSBarry Smith 	nlocal = m;
27436a6a5d1dSBarry Smith       } else {
2744ab50ec6bSBarry Smith         nlocal = n/size + ((n % size) > rank);
2745ab50ec6bSBarry Smith       }
2746ab50ec6bSBarry Smith     } else {
27476a6a5d1dSBarry Smith       nlocal = csize;
27486a6a5d1dSBarry Smith     }
2749b1d57f15SBarry Smith     ierr   = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr);
275000e6dbe6SBarry Smith     rstart = rend - nlocal;
27516a6a5d1dSBarry Smith     if (rank == size - 1 && rend != n) {
275277431f27SBarry Smith       SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n);
27536a6a5d1dSBarry Smith     }
275400e6dbe6SBarry Smith 
275500e6dbe6SBarry Smith     /* next, compute all the lengths */
2756b1d57f15SBarry Smith     ierr  = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr);
275700e6dbe6SBarry Smith     olens = dlens + m;
275800e6dbe6SBarry Smith     for (i=0; i<m; i++) {
275900e6dbe6SBarry Smith       jend = ii[i+1] - ii[i];
276000e6dbe6SBarry Smith       olen = 0;
276100e6dbe6SBarry Smith       dlen = 0;
276200e6dbe6SBarry Smith       for (j=0; j<jend; j++) {
276300e6dbe6SBarry Smith         if (*jj < rstart || *jj >= rend) olen++;
276400e6dbe6SBarry Smith         else dlen++;
276500e6dbe6SBarry Smith         jj++;
276600e6dbe6SBarry Smith       }
276700e6dbe6SBarry Smith       olens[i] = olen;
276800e6dbe6SBarry Smith       dlens[i] = dlen;
276900e6dbe6SBarry Smith     }
2770f69a0ea3SMatthew Knepley     ierr = MatCreate(comm,&M);CHKERRQ(ierr);
2771f69a0ea3SMatthew Knepley     ierr = MatSetSizes(M,m,nlocal,PETSC_DECIDE,n);CHKERRQ(ierr);
27727adad957SLisandro Dalcin     ierr = MatSetType(M,((PetscObject)mat)->type_name);CHKERRQ(ierr);
2773e2d9671bSKris Buschelman     ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr);
2774606d414cSSatish Balay     ierr = PetscFree(dlens);CHKERRQ(ierr);
2775a0ff6018SBarry Smith   } else {
2776b1d57f15SBarry Smith     PetscInt ml,nl;
2777a0ff6018SBarry Smith 
2778a0ff6018SBarry Smith     M = *newmat;
2779a0ff6018SBarry Smith     ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr);
278029bbc08cSBarry Smith     if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request");
2781a0ff6018SBarry Smith     ierr = MatZeroEntries(M);CHKERRQ(ierr);
2782c48de900SBarry Smith     /*
2783c48de900SBarry Smith          The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly,
2784c48de900SBarry Smith        rather than the slower MatSetValues().
2785c48de900SBarry Smith     */
2786c48de900SBarry Smith     M->was_assembled = PETSC_TRUE;
2787c48de900SBarry Smith     M->assembled     = PETSC_FALSE;
2788a0ff6018SBarry Smith   }
2789a0ff6018SBarry Smith   ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr);
2790fee21e36SBarry Smith   aij = (Mat_SeqAIJ*)(Mreuse)->data;
279100e6dbe6SBarry Smith   ii  = aij->i;
279200e6dbe6SBarry Smith   jj  = aij->j;
279300e6dbe6SBarry Smith   aa  = aij->a;
2794a0ff6018SBarry Smith   for (i=0; i<m; i++) {
2795a0ff6018SBarry Smith     row   = rstart + i;
279600e6dbe6SBarry Smith     nz    = ii[i+1] - ii[i];
279700e6dbe6SBarry Smith     cwork = jj;     jj += nz;
279800e6dbe6SBarry Smith     vwork = aa;     aa += nz;
27998c638d02SBarry Smith     ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr);
2800a0ff6018SBarry Smith   }
2801a0ff6018SBarry Smith 
2802a0ff6018SBarry Smith   ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2803a0ff6018SBarry Smith   ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2804a0ff6018SBarry Smith   *newmat = M;
2805fee21e36SBarry Smith 
2806fee21e36SBarry Smith   /* save submatrix used in processor for next request */
2807fee21e36SBarry Smith   if (call ==  MAT_INITIAL_MATRIX) {
2808fee21e36SBarry Smith     ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr);
2809fee21e36SBarry Smith     ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr);
2810fee21e36SBarry Smith   }
2811fee21e36SBarry Smith 
2812a0ff6018SBarry Smith   PetscFunctionReturn(0);
2813a0ff6018SBarry Smith }
2814273d9f13SBarry Smith 
2815e2e86b8fSSatish Balay EXTERN_C_BEGIN
28164a2ae208SSatish Balay #undef __FUNCT__
2817ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ"
2818b7940d39SSatish Balay PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt Ii[],const PetscInt J[],const PetscScalar v[])
2819ccd8e176SBarry Smith {
2820899cda47SBarry Smith   PetscInt       m,cstart, cend,j,nnz,i,d;
2821899cda47SBarry Smith   PetscInt       *d_nnz,*o_nnz,nnz_max = 0,rstart,ii;
2822ccd8e176SBarry Smith   const PetscInt *JJ;
2823ccd8e176SBarry Smith   PetscScalar    *values;
2824ccd8e176SBarry Smith   PetscErrorCode ierr;
2825ccd8e176SBarry Smith 
2826ccd8e176SBarry Smith   PetscFunctionBegin;
2827b7940d39SSatish Balay   if (Ii[0]) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Ii[0] must be 0 it is %D",Ii[0]);
2828899cda47SBarry Smith 
2829899cda47SBarry Smith   B->rmap.bs = B->cmap.bs = 1;
28306148ca0dSBarry Smith   ierr = PetscMapSetUp(&B->rmap);CHKERRQ(ierr);
28316148ca0dSBarry Smith   ierr = PetscMapSetUp(&B->cmap);CHKERRQ(ierr);
2832899cda47SBarry Smith   m      = B->rmap.n;
2833899cda47SBarry Smith   cstart = B->cmap.rstart;
2834899cda47SBarry Smith   cend   = B->cmap.rend;
2835899cda47SBarry Smith   rstart = B->rmap.rstart;
2836899cda47SBarry Smith 
2837ccd8e176SBarry Smith   ierr  = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr);
2838ccd8e176SBarry Smith   o_nnz = d_nnz + m;
2839ccd8e176SBarry Smith 
2840ecc77c7aSBarry Smith #if defined(PETSC_USE_DEBUGGING)
2841ecc77c7aSBarry Smith   for (i=0; i<m; i++) {
2842ecc77c7aSBarry Smith     nnz     = Ii[i+1]- Ii[i];
2843ecc77c7aSBarry Smith     JJ      = J + Ii[i];
2844ecc77c7aSBarry Smith     if (nnz < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Local row %D has a negative %D number of columns",i,nnz);
2845ecc77c7aSBarry Smith     if (nnz && (JJ[0] < 0)) SETERRRQ1(PETSC_ERR_ARG_WRONGSTATE,"Row %D starts with negative column index",i,j);
2846ecc77c7aSBarry Smith     if (nnz && (JJ[nnz-1] >= B->cmap.N) SETERRRQ3(PETSC_ERR_ARG_WRONGSTATE,"Row %D ends with too large a column index %D (max allowed %D)",i,JJ[nnz-1],B->cmap.N);
2847ecc77c7aSBarry Smith     for (j=1; j<nnz; j++) {
2848ecc77c7aSBarry Smith       if (JJ[i] <= JJ[i-1]) SETERRRQ(PETSC_ERR_ARG_WRONGSTATE,"Row %D has unsorted column index at %D location in column indices",i,j);
2849ecc77c7aSBarry Smith     }
2850ecc77c7aSBarry Smith   }
2851ecc77c7aSBarry Smith #endif
2852ecc77c7aSBarry Smith 
2853ccd8e176SBarry Smith   for (i=0; i<m; i++) {
2854b7940d39SSatish Balay     nnz     = Ii[i+1]- Ii[i];
2855b7940d39SSatish Balay     JJ      = J + Ii[i];
2856ccd8e176SBarry Smith     nnz_max = PetscMax(nnz_max,nnz);
2857ccd8e176SBarry Smith     for (j=0; j<nnz; j++) {
2858ccd8e176SBarry Smith       if (*JJ >= cstart) break;
2859ccd8e176SBarry Smith       JJ++;
2860ccd8e176SBarry Smith     }
2861ccd8e176SBarry Smith     d = 0;
2862ccd8e176SBarry Smith     for (; j<nnz; j++) {
2863ccd8e176SBarry Smith       if (*JJ++ >= cend) break;
2864ccd8e176SBarry Smith       d++;
2865ccd8e176SBarry Smith     }
2866ccd8e176SBarry Smith     d_nnz[i] = d;
2867ccd8e176SBarry Smith     o_nnz[i] = nnz - d;
2868ccd8e176SBarry Smith   }
2869ccd8e176SBarry Smith   ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr);
2870ccd8e176SBarry Smith   ierr = PetscFree(d_nnz);CHKERRQ(ierr);
2871ccd8e176SBarry Smith 
2872ccd8e176SBarry Smith   if (v) values = (PetscScalar*)v;
2873ccd8e176SBarry Smith   else {
2874ccd8e176SBarry Smith     ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr);
2875ccd8e176SBarry Smith     ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr);
2876ccd8e176SBarry Smith   }
2877ccd8e176SBarry Smith 
2878ccd8e176SBarry Smith   for (i=0; i<m; i++) {
2879ccd8e176SBarry Smith     ii   = i + rstart;
2880b7940d39SSatish Balay     nnz  = Ii[i+1]- Ii[i];
2881b7940d39SSatish Balay     ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+Ii[i],values+(v ? Ii[i] : 0),INSERT_VALUES);CHKERRQ(ierr);
2882ccd8e176SBarry Smith   }
2883ccd8e176SBarry Smith   ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2884ccd8e176SBarry Smith   ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2885ccd8e176SBarry Smith 
2886ccd8e176SBarry Smith   if (!v) {
2887ccd8e176SBarry Smith     ierr = PetscFree(values);CHKERRQ(ierr);
2888ccd8e176SBarry Smith   }
2889ccd8e176SBarry Smith   PetscFunctionReturn(0);
2890ccd8e176SBarry Smith }
2891e2e86b8fSSatish Balay EXTERN_C_END
2892ccd8e176SBarry Smith 
2893ccd8e176SBarry Smith #undef __FUNCT__
2894ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR"
28951eea217eSSatish Balay /*@
2896ccd8e176SBarry Smith    MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format
2897ccd8e176SBarry Smith    (the default parallel PETSc format).
2898ccd8e176SBarry Smith 
2899ccd8e176SBarry Smith    Collective on MPI_Comm
2900ccd8e176SBarry Smith 
2901ccd8e176SBarry Smith    Input Parameters:
2902a1661176SMatthew Knepley +  B - the matrix
2903ccd8e176SBarry Smith .  i - the indices into j for the start of each local row (starts with zero)
2904ccd8e176SBarry Smith .  j - the column indices for each local row (starts with zero) these must be sorted for each row
2905ccd8e176SBarry Smith -  v - optional values in the matrix
2906ccd8e176SBarry Smith 
2907ccd8e176SBarry Smith    Level: developer
2908ccd8e176SBarry Smith 
290912251496SSatish Balay    Notes:
291012251496SSatish Balay        The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc;
291112251496SSatish Balay      thus you CANNOT change the matrix entries by changing the values of a[] after you have
291212251496SSatish Balay      called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays.
291312251496SSatish Balay 
291412251496SSatish Balay        The i and j indices are 0 based, and i indices are indices corresponding to the local j array.
291512251496SSatish Balay 
291612251496SSatish Balay        The format which is used for the sparse matrix input, is equivalent to a
291712251496SSatish Balay     row-major ordering.. i.e for the following matrix, the input data expected is
291812251496SSatish Balay     as shown:
291912251496SSatish Balay 
292012251496SSatish Balay         1 0 0
292112251496SSatish Balay         2 0 3     P0
292212251496SSatish Balay        -------
292312251496SSatish Balay         4 5 6     P1
292412251496SSatish Balay 
292512251496SSatish Balay      Process0 [P0]: rows_owned=[0,1]
292612251496SSatish Balay         i =  {0,1,3}  [size = nrow+1  = 2+1]
292712251496SSatish Balay         j =  {0,0,2}  [size = nz = 6]
292812251496SSatish Balay         v =  {1,2,3}  [size = nz = 6]
292912251496SSatish Balay 
293012251496SSatish Balay      Process1 [P1]: rows_owned=[2]
293112251496SSatish Balay         i =  {0,3}    [size = nrow+1  = 1+1]
293212251496SSatish Balay         j =  {0,1,2}  [size = nz = 6]
293312251496SSatish Balay         v =  {4,5,6}  [size = nz = 6]
293412251496SSatish Balay 
2935ecc77c7aSBarry Smith       The column indices for each row MUST be sorted.
29362fb0ec9aSBarry Smith 
2937ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
2938ccd8e176SBarry Smith 
29392fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ,
29408d7a6e47SBarry Smith           MatCreateSeqAIJWithArrays(), MatCreateMPIAIJWithSplitArrays()
2941ccd8e176SBarry Smith @*/
2942be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[])
2943ccd8e176SBarry Smith {
2944ccd8e176SBarry Smith   PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]);
2945ccd8e176SBarry Smith 
2946ccd8e176SBarry Smith   PetscFunctionBegin;
2947ccd8e176SBarry Smith   ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr);
2948ccd8e176SBarry Smith   if (f) {
2949ccd8e176SBarry Smith     ierr = (*f)(B,i,j,v);CHKERRQ(ierr);
2950ccd8e176SBarry Smith   }
2951ccd8e176SBarry Smith   PetscFunctionReturn(0);
2952ccd8e176SBarry Smith }
2953ccd8e176SBarry Smith 
2954ccd8e176SBarry Smith #undef __FUNCT__
29554a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation"
2956273d9f13SBarry Smith /*@C
2957ccd8e176SBarry Smith    MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format
2958273d9f13SBarry Smith    (the default parallel PETSc format).  For good matrix assembly performance
2959273d9f13SBarry Smith    the user should preallocate the matrix storage by setting the parameters
2960273d9f13SBarry Smith    d_nz (or d_nnz) and o_nz (or o_nnz).  By setting these parameters accurately,
2961273d9f13SBarry Smith    performance can be increased by more than a factor of 50.
2962273d9f13SBarry Smith 
2963273d9f13SBarry Smith    Collective on MPI_Comm
2964273d9f13SBarry Smith 
2965273d9f13SBarry Smith    Input Parameters:
2966273d9f13SBarry Smith +  A - the matrix
2967273d9f13SBarry Smith .  d_nz  - number of nonzeros per row in DIAGONAL portion of local submatrix
2968273d9f13SBarry Smith            (same value is used for all local rows)
2969273d9f13SBarry Smith .  d_nnz - array containing the number of nonzeros in the various rows of the
2970273d9f13SBarry Smith            DIAGONAL portion of the local submatrix (possibly different for each row)
2971273d9f13SBarry Smith            or PETSC_NULL, if d_nz is used to specify the nonzero structure.
2972273d9f13SBarry Smith            The size of this array is equal to the number of local rows, i.e 'm'.
2973273d9f13SBarry Smith            You must leave room for the diagonal entry even if it is zero.
2974273d9f13SBarry Smith .  o_nz  - number of nonzeros per row in the OFF-DIAGONAL portion of local
2975273d9f13SBarry Smith            submatrix (same value is used for all local rows).
2976273d9f13SBarry Smith -  o_nnz - array containing the number of nonzeros in the various rows of the
2977273d9f13SBarry Smith            OFF-DIAGONAL portion of the local submatrix (possibly different for
2978273d9f13SBarry Smith            each row) or PETSC_NULL, if o_nz is used to specify the nonzero
2979273d9f13SBarry Smith            structure. The size of this array is equal to the number
2980273d9f13SBarry Smith            of local rows, i.e 'm'.
2981273d9f13SBarry Smith 
298249a6f317SBarry Smith    If the *_nnz parameter is given then the *_nz parameter is ignored
298349a6f317SBarry Smith 
2984273d9f13SBarry Smith    The AIJ format (also called the Yale sparse matrix format or
2985ccd8e176SBarry Smith    compressed row storage (CSR)), is fully compatible with standard Fortran 77
2986ccd8e176SBarry Smith    storage.  The stored row and column indices begin with zero.  See the users manual for details.
2987273d9f13SBarry Smith 
2988273d9f13SBarry Smith    The parallel matrix is partitioned such that the first m0 rows belong to
2989273d9f13SBarry Smith    process 0, the next m1 rows belong to process 1, the next m2 rows belong
2990273d9f13SBarry Smith    to process 2 etc.. where m0,m1,m2... are the input parameter 'm'.
2991273d9f13SBarry Smith 
2992273d9f13SBarry Smith    The DIAGONAL portion of the local submatrix of a processor can be defined
2993273d9f13SBarry Smith    as the submatrix which is obtained by extraction the part corresponding
2994273d9f13SBarry Smith    to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the
2995273d9f13SBarry Smith    first row that belongs to the processor, and r2 is the last row belonging
2996273d9f13SBarry Smith    to the this processor. This is a square mxm matrix. The remaining portion
2997273d9f13SBarry Smith    of the local submatrix (mxN) constitute the OFF-DIAGONAL portion.
2998273d9f13SBarry Smith 
2999273d9f13SBarry Smith    If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored.
3000273d9f13SBarry Smith 
3001aa95bbe8SBarry Smith    You can call MatGetInfo() to get information on how effective the preallocation was;
3002aa95bbe8SBarry Smith    for example the fields mallocs,nz_allocated,nz_used,nz_unneeded;
3003aa95bbe8SBarry Smith    You can also run with the option -info and look for messages with the string
3004aa95bbe8SBarry Smith    malloc in them to see if additional memory allocation was needed.
3005aa95bbe8SBarry Smith 
3006273d9f13SBarry Smith    Example usage:
3007273d9f13SBarry Smith 
3008273d9f13SBarry Smith    Consider the following 8x8 matrix with 34 non-zero values, that is
3009273d9f13SBarry Smith    assembled across 3 processors. Lets assume that proc0 owns 3 rows,
3010273d9f13SBarry Smith    proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown
3011273d9f13SBarry Smith    as follows:
3012273d9f13SBarry Smith 
3013273d9f13SBarry Smith .vb
3014273d9f13SBarry Smith             1  2  0  |  0  3  0  |  0  4
3015273d9f13SBarry Smith     Proc0   0  5  6  |  7  0  0  |  8  0
3016273d9f13SBarry Smith             9  0 10  | 11  0  0  | 12  0
3017273d9f13SBarry Smith     -------------------------------------
3018273d9f13SBarry Smith            13  0 14  | 15 16 17  |  0  0
3019273d9f13SBarry Smith     Proc1   0 18  0  | 19 20 21  |  0  0
3020273d9f13SBarry Smith             0  0  0  | 22 23  0  | 24  0
3021273d9f13SBarry Smith     -------------------------------------
3022273d9f13SBarry Smith     Proc2  25 26 27  |  0  0 28  | 29  0
3023273d9f13SBarry Smith            30  0  0  | 31 32 33  |  0 34
3024273d9f13SBarry Smith .ve
3025273d9f13SBarry Smith 
3026273d9f13SBarry Smith    This can be represented as a collection of submatrices as:
3027273d9f13SBarry Smith 
3028273d9f13SBarry Smith .vb
3029273d9f13SBarry Smith       A B C
3030273d9f13SBarry Smith       D E F
3031273d9f13SBarry Smith       G H I
3032273d9f13SBarry Smith .ve
3033273d9f13SBarry Smith 
3034273d9f13SBarry Smith    Where the submatrices A,B,C are owned by proc0, D,E,F are
3035273d9f13SBarry Smith    owned by proc1, G,H,I are owned by proc2.
3036273d9f13SBarry Smith 
3037273d9f13SBarry Smith    The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
3038273d9f13SBarry Smith    The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
3039273d9f13SBarry Smith    The 'M','N' parameters are 8,8, and have the same values on all procs.
3040273d9f13SBarry Smith 
3041273d9f13SBarry Smith    The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are
3042273d9f13SBarry Smith    submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices
3043273d9f13SBarry Smith    corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively.
3044273d9f13SBarry Smith    Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL
3045273d9f13SBarry Smith    part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ
3046273d9f13SBarry Smith    matrix, ans [DF] as another SeqAIJ matrix.
3047273d9f13SBarry Smith 
3048273d9f13SBarry Smith    When d_nz, o_nz parameters are specified, d_nz storage elements are
3049273d9f13SBarry Smith    allocated for every row of the local diagonal submatrix, and o_nz
3050273d9f13SBarry Smith    storage locations are allocated for every row of the OFF-DIAGONAL submat.
3051273d9f13SBarry Smith    One way to choose d_nz and o_nz is to use the max nonzerors per local
3052273d9f13SBarry Smith    rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices.
3053273d9f13SBarry Smith    In this case, the values of d_nz,o_nz are:
3054273d9f13SBarry Smith .vb
3055273d9f13SBarry Smith      proc0 : dnz = 2, o_nz = 2
3056273d9f13SBarry Smith      proc1 : dnz = 3, o_nz = 2
3057273d9f13SBarry Smith      proc2 : dnz = 1, o_nz = 4
3058273d9f13SBarry Smith .ve
3059273d9f13SBarry Smith    We are allocating m*(d_nz+o_nz) storage locations for every proc. This
3060273d9f13SBarry Smith    translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10
3061273d9f13SBarry Smith    for proc3. i.e we are using 12+15+10=37 storage locations to store
3062273d9f13SBarry Smith    34 values.
3063273d9f13SBarry Smith 
3064273d9f13SBarry Smith    When d_nnz, o_nnz parameters are specified, the storage is specified
3065273d9f13SBarry Smith    for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices.
3066273d9f13SBarry Smith    In the above case the values for d_nnz,o_nnz are:
3067273d9f13SBarry Smith .vb
3068273d9f13SBarry Smith      proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2]
3069273d9f13SBarry Smith      proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1]
3070273d9f13SBarry Smith      proc2: d_nnz = [1,1]   and o_nnz = [4,4]
3071273d9f13SBarry Smith .ve
3072273d9f13SBarry Smith    Here the space allocated is sum of all the above values i.e 34, and
3073273d9f13SBarry Smith    hence pre-allocation is perfect.
3074273d9f13SBarry Smith 
3075273d9f13SBarry Smith    Level: intermediate
3076273d9f13SBarry Smith 
3077273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
3078273d9f13SBarry Smith 
3079ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(),
3080aa95bbe8SBarry Smith           MPIAIJ, MatGetInfo()
3081273d9f13SBarry Smith @*/
3082be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[])
3083273d9f13SBarry Smith {
3084b1d57f15SBarry Smith   PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]);
3085273d9f13SBarry Smith 
3086273d9f13SBarry Smith   PetscFunctionBegin;
3087a23d5eceSKris Buschelman   ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr);
3088a23d5eceSKris Buschelman   if (f) {
3089a23d5eceSKris Buschelman     ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr);
3090273d9f13SBarry Smith   }
3091273d9f13SBarry Smith   PetscFunctionReturn(0);
3092273d9f13SBarry Smith }
3093273d9f13SBarry Smith 
30944a2ae208SSatish Balay #undef __FUNCT__
30952fb0ec9aSBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithArrays"
309658d36128SBarry Smith /*@
30972fb0ec9aSBarry Smith      MatCreateMPIAIJWithArrays - creates a MPI AIJ matrix using arrays that contain in standard
30982fb0ec9aSBarry Smith          CSR format the local rows.
30992fb0ec9aSBarry Smith 
31002fb0ec9aSBarry Smith    Collective on MPI_Comm
31012fb0ec9aSBarry Smith 
31022fb0ec9aSBarry Smith    Input Parameters:
31032fb0ec9aSBarry Smith +  comm - MPI communicator
31042fb0ec9aSBarry Smith .  m - number of local rows (Cannot be PETSC_DECIDE)
31052fb0ec9aSBarry Smith .  n - This value should be the same as the local size used in creating the
31062fb0ec9aSBarry Smith        x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have
31072fb0ec9aSBarry Smith        calculated if N is given) For square matrices n is almost always m.
31082fb0ec9aSBarry Smith .  M - number of global rows (or PETSC_DETERMINE to have calculated if m is given)
31092fb0ec9aSBarry Smith .  N - number of global columns (or PETSC_DETERMINE to have calculated if n is given)
31102fb0ec9aSBarry Smith .   i - row indices
31112fb0ec9aSBarry Smith .   j - column indices
31122fb0ec9aSBarry Smith -   a - matrix values
31132fb0ec9aSBarry Smith 
31142fb0ec9aSBarry Smith    Output Parameter:
31152fb0ec9aSBarry Smith .   mat - the matrix
311603bfb495SBarry Smith 
31172fb0ec9aSBarry Smith    Level: intermediate
31182fb0ec9aSBarry Smith 
31192fb0ec9aSBarry Smith    Notes:
31202fb0ec9aSBarry Smith        The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc;
31212fb0ec9aSBarry Smith      thus you CANNOT change the matrix entries by changing the values of a[] after you have
31228d7a6e47SBarry Smith      called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays.
31232fb0ec9aSBarry Smith 
312412251496SSatish Balay        The i and j indices are 0 based, and i indices are indices corresponding to the local j array.
312512251496SSatish Balay 
312612251496SSatish Balay        The format which is used for the sparse matrix input, is equivalent to a
312712251496SSatish Balay     row-major ordering.. i.e for the following matrix, the input data expected is
312812251496SSatish Balay     as shown:
312912251496SSatish Balay 
313012251496SSatish Balay         1 0 0
313112251496SSatish Balay         2 0 3     P0
313212251496SSatish Balay        -------
313312251496SSatish Balay         4 5 6     P1
313412251496SSatish Balay 
313512251496SSatish Balay      Process0 [P0]: rows_owned=[0,1]
313612251496SSatish Balay         i =  {0,1,3}  [size = nrow+1  = 2+1]
313712251496SSatish Balay         j =  {0,0,2}  [size = nz = 6]
313812251496SSatish Balay         v =  {1,2,3}  [size = nz = 6]
313912251496SSatish Balay 
314012251496SSatish Balay      Process1 [P1]: rows_owned=[2]
314112251496SSatish Balay         i =  {0,3}    [size = nrow+1  = 1+1]
314212251496SSatish Balay         j =  {0,1,2}  [size = nz = 6]
314312251496SSatish Balay         v =  {4,5,6}  [size = nz = 6]
31442fb0ec9aSBarry Smith 
31452fb0ec9aSBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
31462fb0ec9aSBarry Smith 
31472fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(),
31488d7a6e47SBarry Smith           MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithSplitArrays()
31492fb0ec9aSBarry Smith @*/
315082b90586SSatish Balay PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIAIJWithArrays(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,const PetscInt i[],const PetscInt j[],const PetscScalar a[],Mat *mat)
31512fb0ec9aSBarry Smith {
31522fb0ec9aSBarry Smith   PetscErrorCode ierr;
31532fb0ec9aSBarry Smith 
31542fb0ec9aSBarry Smith  PetscFunctionBegin;
31552fb0ec9aSBarry Smith   if (i[0]) {
31562fb0ec9aSBarry Smith     SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0");
31572fb0ec9aSBarry Smith   }
31582fb0ec9aSBarry Smith   if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative");
31592fb0ec9aSBarry Smith   ierr = MatCreate(comm,mat);CHKERRQ(ierr);
3160d4146a68SBarry Smith   ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr);
31612fb0ec9aSBarry Smith   ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr);
31622fb0ec9aSBarry Smith   ierr = MatMPIAIJSetPreallocationCSR(*mat,i,j,a);CHKERRQ(ierr);
31632fb0ec9aSBarry Smith   PetscFunctionReturn(0);
31642fb0ec9aSBarry Smith }
31652fb0ec9aSBarry Smith 
31662fb0ec9aSBarry Smith #undef __FUNCT__
31674a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ"
3168273d9f13SBarry Smith /*@C
3169273d9f13SBarry Smith    MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format
3170273d9f13SBarry Smith    (the default parallel PETSc format).  For good matrix assembly performance
3171273d9f13SBarry Smith    the user should preallocate the matrix storage by setting the parameters
3172273d9f13SBarry Smith    d_nz (or d_nnz) and o_nz (or o_nnz).  By setting these parameters accurately,
3173273d9f13SBarry Smith    performance can be increased by more than a factor of 50.
3174273d9f13SBarry Smith 
3175273d9f13SBarry Smith    Collective on MPI_Comm
3176273d9f13SBarry Smith 
3177273d9f13SBarry Smith    Input Parameters:
3178273d9f13SBarry Smith +  comm - MPI communicator
3179273d9f13SBarry Smith .  m - number of local rows (or PETSC_DECIDE to have calculated if M is given)
3180273d9f13SBarry Smith            This value should be the same as the local size used in creating the
3181273d9f13SBarry Smith            y vector for the matrix-vector product y = Ax.
3182273d9f13SBarry Smith .  n - This value should be the same as the local size used in creating the
3183273d9f13SBarry Smith        x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have
3184273d9f13SBarry Smith        calculated if N is given) For square matrices n is almost always m.
3185273d9f13SBarry Smith .  M - number of global rows (or PETSC_DETERMINE to have calculated if m is given)
3186273d9f13SBarry Smith .  N - number of global columns (or PETSC_DETERMINE to have calculated if n is given)
3187273d9f13SBarry Smith .  d_nz  - number of nonzeros per row in DIAGONAL portion of local submatrix
3188273d9f13SBarry Smith            (same value is used for all local rows)
3189273d9f13SBarry Smith .  d_nnz - array containing the number of nonzeros in the various rows of the
3190273d9f13SBarry Smith            DIAGONAL portion of the local submatrix (possibly different for each row)
3191273d9f13SBarry Smith            or PETSC_NULL, if d_nz is used to specify the nonzero structure.
3192273d9f13SBarry Smith            The size of this array is equal to the number of local rows, i.e 'm'.
3193273d9f13SBarry Smith            You must leave room for the diagonal entry even if it is zero.
3194273d9f13SBarry Smith .  o_nz  - number of nonzeros per row in the OFF-DIAGONAL portion of local
3195273d9f13SBarry Smith            submatrix (same value is used for all local rows).
3196273d9f13SBarry Smith -  o_nnz - array containing the number of nonzeros in the various rows of the
3197273d9f13SBarry Smith            OFF-DIAGONAL portion of the local submatrix (possibly different for
3198273d9f13SBarry Smith            each row) or PETSC_NULL, if o_nz is used to specify the nonzero
3199273d9f13SBarry Smith            structure. The size of this array is equal to the number
3200273d9f13SBarry Smith            of local rows, i.e 'm'.
3201273d9f13SBarry Smith 
3202273d9f13SBarry Smith    Output Parameter:
3203273d9f13SBarry Smith .  A - the matrix
3204273d9f13SBarry Smith 
3205175b88e8SBarry Smith    It is recommended that one use the MatCreate(), MatSetType() and/or MatSetFromOptions(),
3206175b88e8SBarry Smith    MatXXXXSetPreallocation() paradgm instead of this routine directly. This is definitely
3207175b88e8SBarry Smith    true if you plan to use the external direct solvers such as SuperLU, MUMPS or Spooles.
3208175b88e8SBarry Smith    [MatXXXXSetPreallocation() is, for example, MatSeqAIJSetPreallocation]
3209175b88e8SBarry Smith 
3210273d9f13SBarry Smith    Notes:
321149a6f317SBarry Smith    If the *_nnz parameter is given then the *_nz parameter is ignored
321249a6f317SBarry Smith 
3213273d9f13SBarry Smith    m,n,M,N parameters specify the size of the matrix, and its partitioning across
3214273d9f13SBarry Smith    processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate
3215273d9f13SBarry Smith    storage requirements for this matrix.
3216273d9f13SBarry Smith 
3217273d9f13SBarry Smith    If PETSC_DECIDE or  PETSC_DETERMINE is used for a particular argument on one
3218273d9f13SBarry Smith    processor than it must be used on all processors that share the object for
3219273d9f13SBarry Smith    that argument.
3220273d9f13SBarry Smith 
3221273d9f13SBarry Smith    The user MUST specify either the local or global matrix dimensions
3222273d9f13SBarry Smith    (possibly both).
3223273d9f13SBarry Smith 
322433a7c187SSatish Balay    The parallel matrix is partitioned across processors such that the
322533a7c187SSatish Balay    first m0 rows belong to process 0, the next m1 rows belong to
322633a7c187SSatish Balay    process 1, the next m2 rows belong to process 2 etc.. where
322733a7c187SSatish Balay    m0,m1,m2,.. are the input parameter 'm'. i.e each processor stores
322833a7c187SSatish Balay    values corresponding to [m x N] submatrix.
3229273d9f13SBarry Smith 
323033a7c187SSatish Balay    The columns are logically partitioned with the n0 columns belonging
323133a7c187SSatish Balay    to 0th partition, the next n1 columns belonging to the next
323233a7c187SSatish Balay    partition etc.. where n0,n1,n2... are the the input parameter 'n'.
323333a7c187SSatish Balay 
323433a7c187SSatish Balay    The DIAGONAL portion of the local submatrix on any given processor
323533a7c187SSatish Balay    is the submatrix corresponding to the rows and columns m,n
323633a7c187SSatish Balay    corresponding to the given processor. i.e diagonal matrix on
323733a7c187SSatish Balay    process 0 is [m0 x n0], diagonal matrix on process 1 is [m1 x n1]
323833a7c187SSatish Balay    etc. The remaining portion of the local submatrix [m x (N-n)]
323933a7c187SSatish Balay    constitute the OFF-DIAGONAL portion. The example below better
324033a7c187SSatish Balay    illustrates this concept.
324133a7c187SSatish Balay 
324233a7c187SSatish Balay    For a square global matrix we define each processor's diagonal portion
324333a7c187SSatish Balay    to be its local rows and the corresponding columns (a square submatrix);
324433a7c187SSatish Balay    each processor's off-diagonal portion encompasses the remainder of the
324533a7c187SSatish Balay    local matrix (a rectangular submatrix).
3246273d9f13SBarry Smith 
3247273d9f13SBarry Smith    If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored.
3248273d9f13SBarry Smith 
324997d05335SKris Buschelman    When calling this routine with a single process communicator, a matrix of
325097d05335SKris Buschelman    type SEQAIJ is returned.  If a matrix of type MPIAIJ is desired for this
325197d05335SKris Buschelman    type of communicator, use the construction mechanism:
325297d05335SKris Buschelman      MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...);
325397d05335SKris Buschelman 
3254273d9f13SBarry Smith    By default, this format uses inodes (identical nodes) when possible.
3255273d9f13SBarry Smith    We search for consecutive rows with the same nonzero structure, thereby
3256273d9f13SBarry Smith    reusing matrix information to achieve increased efficiency.
3257273d9f13SBarry Smith 
3258273d9f13SBarry Smith    Options Database Keys:
3259923f20ffSKris Buschelman +  -mat_no_inode  - Do not use inodes
3260923f20ffSKris Buschelman .  -mat_inode_limit <limit> - Sets inode limit (max limit=5)
3261273d9f13SBarry Smith -  -mat_aij_oneindex - Internally use indexing starting at 1
3262273d9f13SBarry Smith         rather than 0.  Note that when calling MatSetValues(),
3263273d9f13SBarry Smith         the user still MUST index entries starting at 0!
3264273d9f13SBarry Smith 
3265273d9f13SBarry Smith 
3266273d9f13SBarry Smith    Example usage:
3267273d9f13SBarry Smith 
3268273d9f13SBarry Smith    Consider the following 8x8 matrix with 34 non-zero values, that is
3269273d9f13SBarry Smith    assembled across 3 processors. Lets assume that proc0 owns 3 rows,
3270273d9f13SBarry Smith    proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown
3271273d9f13SBarry Smith    as follows:
3272273d9f13SBarry Smith 
3273273d9f13SBarry Smith .vb
3274273d9f13SBarry Smith             1  2  0  |  0  3  0  |  0  4
3275273d9f13SBarry Smith     Proc0   0  5  6  |  7  0  0  |  8  0
3276273d9f13SBarry Smith             9  0 10  | 11  0  0  | 12  0
3277273d9f13SBarry Smith     -------------------------------------
3278273d9f13SBarry Smith            13  0 14  | 15 16 17  |  0  0
3279273d9f13SBarry Smith     Proc1   0 18  0  | 19 20 21  |  0  0
3280273d9f13SBarry Smith             0  0  0  | 22 23  0  | 24  0
3281273d9f13SBarry Smith     -------------------------------------
3282273d9f13SBarry Smith     Proc2  25 26 27  |  0  0 28  | 29  0
3283273d9f13SBarry Smith            30  0  0  | 31 32 33  |  0 34
3284273d9f13SBarry Smith .ve
3285273d9f13SBarry Smith 
3286273d9f13SBarry Smith    This can be represented as a collection of submatrices as:
3287273d9f13SBarry Smith 
3288273d9f13SBarry Smith .vb
3289273d9f13SBarry Smith       A B C
3290273d9f13SBarry Smith       D E F
3291273d9f13SBarry Smith       G H I
3292273d9f13SBarry Smith .ve
3293273d9f13SBarry Smith 
3294273d9f13SBarry Smith    Where the submatrices A,B,C are owned by proc0, D,E,F are
3295273d9f13SBarry Smith    owned by proc1, G,H,I are owned by proc2.
3296273d9f13SBarry Smith 
3297273d9f13SBarry Smith    The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
3298273d9f13SBarry Smith    The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
3299273d9f13SBarry Smith    The 'M','N' parameters are 8,8, and have the same values on all procs.
3300273d9f13SBarry Smith 
3301273d9f13SBarry Smith    The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are
3302273d9f13SBarry Smith    submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices
3303273d9f13SBarry Smith    corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively.
3304273d9f13SBarry Smith    Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL
3305273d9f13SBarry Smith    part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ
3306273d9f13SBarry Smith    matrix, ans [DF] as another SeqAIJ matrix.
3307273d9f13SBarry Smith 
3308273d9f13SBarry Smith    When d_nz, o_nz parameters are specified, d_nz storage elements are
3309273d9f13SBarry Smith    allocated for every row of the local diagonal submatrix, and o_nz
3310273d9f13SBarry Smith    storage locations are allocated for every row of the OFF-DIAGONAL submat.
3311273d9f13SBarry Smith    One way to choose d_nz and o_nz is to use the max nonzerors per local
3312273d9f13SBarry Smith    rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices.
3313273d9f13SBarry Smith    In this case, the values of d_nz,o_nz are:
3314273d9f13SBarry Smith .vb
3315273d9f13SBarry Smith      proc0 : dnz = 2, o_nz = 2
3316273d9f13SBarry Smith      proc1 : dnz = 3, o_nz = 2
3317273d9f13SBarry Smith      proc2 : dnz = 1, o_nz = 4
3318273d9f13SBarry Smith .ve
3319273d9f13SBarry Smith    We are allocating m*(d_nz+o_nz) storage locations for every proc. This
3320273d9f13SBarry Smith    translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10
3321273d9f13SBarry Smith    for proc3. i.e we are using 12+15+10=37 storage locations to store
3322273d9f13SBarry Smith    34 values.
3323273d9f13SBarry Smith 
3324273d9f13SBarry Smith    When d_nnz, o_nnz parameters are specified, the storage is specified
3325273d9f13SBarry Smith    for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices.
3326273d9f13SBarry Smith    In the above case the values for d_nnz,o_nnz are:
3327273d9f13SBarry Smith .vb
3328273d9f13SBarry Smith      proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2]
3329273d9f13SBarry Smith      proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1]
3330273d9f13SBarry Smith      proc2: d_nnz = [1,1]   and o_nnz = [4,4]
3331273d9f13SBarry Smith .ve
3332273d9f13SBarry Smith    Here the space allocated is sum of all the above values i.e 34, and
3333273d9f13SBarry Smith    hence pre-allocation is perfect.
3334273d9f13SBarry Smith 
3335273d9f13SBarry Smith    Level: intermediate
3336273d9f13SBarry Smith 
3337273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
3338273d9f13SBarry Smith 
3339ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(),
33402fb0ec9aSBarry Smith           MPIAIJ, MatCreateMPIAIJWithArrays()
3341273d9f13SBarry Smith @*/
3342be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIAIJ(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[],Mat *A)
3343273d9f13SBarry Smith {
33446849ba73SBarry Smith   PetscErrorCode ierr;
3345b1d57f15SBarry Smith   PetscMPIInt    size;
3346273d9f13SBarry Smith 
3347273d9f13SBarry Smith   PetscFunctionBegin;
3348f69a0ea3SMatthew Knepley   ierr = MatCreate(comm,A);CHKERRQ(ierr);
3349f69a0ea3SMatthew Knepley   ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr);
3350273d9f13SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
3351273d9f13SBarry Smith   if (size > 1) {
3352273d9f13SBarry Smith     ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr);
3353273d9f13SBarry Smith     ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr);
3354273d9f13SBarry Smith   } else {
3355273d9f13SBarry Smith     ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr);
3356273d9f13SBarry Smith     ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr);
3357273d9f13SBarry Smith   }
3358273d9f13SBarry Smith   PetscFunctionReturn(0);
3359273d9f13SBarry Smith }
3360195d93cdSBarry Smith 
33614a2ae208SSatish Balay #undef __FUNCT__
33624a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ"
3363be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[])
3364195d93cdSBarry Smith {
3365195d93cdSBarry Smith   Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data;
3366b1d57f15SBarry Smith 
3367195d93cdSBarry Smith   PetscFunctionBegin;
3368195d93cdSBarry Smith   *Ad     = a->A;
3369195d93cdSBarry Smith   *Ao     = a->B;
3370195d93cdSBarry Smith   *colmap = a->garray;
3371195d93cdSBarry Smith   PetscFunctionReturn(0);
3372195d93cdSBarry Smith }
3373a2243be0SBarry Smith 
3374a2243be0SBarry Smith #undef __FUNCT__
3375a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ"
3376dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring)
3377a2243be0SBarry Smith {
3378dfbe8321SBarry Smith   PetscErrorCode ierr;
3379b1d57f15SBarry Smith   PetscInt       i;
3380a2243be0SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
3381a2243be0SBarry Smith 
3382a2243be0SBarry Smith   PetscFunctionBegin;
33838ee2e534SBarry Smith   if (coloring->ctype == IS_COLORING_GLOBAL) {
338408b6dcc0SBarry Smith     ISColoringValue *allcolors,*colors;
3385a2243be0SBarry Smith     ISColoring      ocoloring;
3386a2243be0SBarry Smith 
3387a2243be0SBarry Smith     /* set coloring for diagonal portion */
3388a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr);
3389a2243be0SBarry Smith 
3390a2243be0SBarry Smith     /* set coloring for off-diagonal portion */
33917adad957SLisandro Dalcin     ierr = ISAllGatherColors(((PetscObject)A)->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr);
3392899cda47SBarry Smith     ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr);
3393899cda47SBarry Smith     for (i=0; i<a->B->cmap.n; i++) {
3394a2243be0SBarry Smith       colors[i] = allcolors[a->garray[i]];
3395a2243be0SBarry Smith     }
3396a2243be0SBarry Smith     ierr = PetscFree(allcolors);CHKERRQ(ierr);
339795a80f87SBarry Smith     ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr);
3398a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr);
3399a2243be0SBarry Smith     ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr);
3400a2243be0SBarry Smith   } else if (coloring->ctype == IS_COLORING_GHOSTED) {
340108b6dcc0SBarry Smith     ISColoringValue *colors;
3402b1d57f15SBarry Smith     PetscInt        *larray;
3403a2243be0SBarry Smith     ISColoring      ocoloring;
3404a2243be0SBarry Smith 
3405a2243be0SBarry Smith     /* set coloring for diagonal portion */
3406899cda47SBarry Smith     ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr);
3407899cda47SBarry Smith     for (i=0; i<a->A->cmap.n; i++) {
3408899cda47SBarry Smith       larray[i] = i + A->cmap.rstart;
3409a2243be0SBarry Smith     }
3410899cda47SBarry Smith     ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->cmap.n,larray,PETSC_NULL,larray);CHKERRQ(ierr);
3411899cda47SBarry Smith     ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr);
3412899cda47SBarry Smith     for (i=0; i<a->A->cmap.n; i++) {
3413a2243be0SBarry Smith       colors[i] = coloring->colors[larray[i]];
3414a2243be0SBarry Smith     }
3415a2243be0SBarry Smith     ierr = PetscFree(larray);CHKERRQ(ierr);
341695a80f87SBarry Smith     ierr = ISColoringCreate(PETSC_COMM_SELF,coloring->n,a->A->cmap.n,colors,&ocoloring);CHKERRQ(ierr);
3417a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr);
3418a2243be0SBarry Smith     ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr);
3419a2243be0SBarry Smith 
3420a2243be0SBarry Smith     /* set coloring for off-diagonal portion */
3421899cda47SBarry Smith     ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr);
3422899cda47SBarry Smith     ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->cmap.n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr);
3423899cda47SBarry Smith     ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr);
3424899cda47SBarry Smith     for (i=0; i<a->B->cmap.n; i++) {
3425a2243be0SBarry Smith       colors[i] = coloring->colors[larray[i]];
3426a2243be0SBarry Smith     }
3427a2243be0SBarry Smith     ierr = PetscFree(larray);CHKERRQ(ierr);
342895a80f87SBarry Smith     ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr);
3429a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr);
3430a2243be0SBarry Smith     ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr);
3431a2243be0SBarry Smith   } else {
343277431f27SBarry Smith     SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype);
3433a2243be0SBarry Smith   }
3434a2243be0SBarry Smith 
3435a2243be0SBarry Smith   PetscFunctionReturn(0);
3436a2243be0SBarry Smith }
3437a2243be0SBarry Smith 
3438dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC)
3439a2243be0SBarry Smith #undef __FUNCT__
3440779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ"
3441dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues)
3442a2243be0SBarry Smith {
3443a2243be0SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
3444dfbe8321SBarry Smith   PetscErrorCode ierr;
3445a2243be0SBarry Smith 
3446a2243be0SBarry Smith   PetscFunctionBegin;
3447779c1a83SBarry Smith   ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr);
3448779c1a83SBarry Smith   ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr);
3449779c1a83SBarry Smith   PetscFunctionReturn(0);
3450779c1a83SBarry Smith }
3451dcf5cc72SBarry Smith #endif
3452779c1a83SBarry Smith 
3453779c1a83SBarry Smith #undef __FUNCT__
3454779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ"
3455b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues)
3456779c1a83SBarry Smith {
3457779c1a83SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
3458dfbe8321SBarry Smith   PetscErrorCode ierr;
3459779c1a83SBarry Smith 
3460779c1a83SBarry Smith   PetscFunctionBegin;
3461779c1a83SBarry Smith   ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr);
3462779c1a83SBarry Smith   ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr);
3463a2243be0SBarry Smith   PetscFunctionReturn(0);
3464a2243be0SBarry Smith }
3465c5d6d63eSBarry Smith 
3466c5d6d63eSBarry Smith #undef __FUNCT__
346751dd7536SBarry Smith #define __FUNCT__ "MatMerge"
3468bc08b0f1SBarry Smith /*@
346951dd7536SBarry Smith       MatMerge - Creates a single large PETSc matrix by concatinating sequential
347051dd7536SBarry Smith                  matrices from each processor
3471c5d6d63eSBarry Smith 
3472c5d6d63eSBarry Smith     Collective on MPI_Comm
3473c5d6d63eSBarry Smith 
3474c5d6d63eSBarry Smith    Input Parameters:
347551dd7536SBarry Smith +    comm - the communicators the parallel matrix will live on
3476d6bb3c2dSHong Zhang .    inmat - the input sequential matrices
34770e36024fSHong Zhang .    n - number of local columns (or PETSC_DECIDE)
3478d6bb3c2dSHong Zhang -    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
347951dd7536SBarry Smith 
348051dd7536SBarry Smith    Output Parameter:
348151dd7536SBarry Smith .    outmat - the parallel matrix generated
3482c5d6d63eSBarry Smith 
34837e25d530SSatish Balay     Level: advanced
34847e25d530SSatish Balay 
3485f08fae4eSHong Zhang    Notes: The number of columns of the matrix in EACH processor MUST be the same.
3486c5d6d63eSBarry Smith 
3487c5d6d63eSBarry Smith @*/
3488be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat)
3489c5d6d63eSBarry Smith {
3490dfbe8321SBarry Smith   PetscErrorCode ierr;
3491b7940d39SSatish Balay   PetscInt       m,N,i,rstart,nnz,Ii,*dnz,*onz;
3492ba8c8a56SBarry Smith   PetscInt       *indx;
3493ba8c8a56SBarry Smith   PetscScalar    *values;
3494c5d6d63eSBarry Smith 
3495c5d6d63eSBarry Smith   PetscFunctionBegin;
34960e36024fSHong Zhang   ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr);
3497d6bb3c2dSHong Zhang   if (scall == MAT_INITIAL_MATRIX){
3498d6bb3c2dSHong Zhang     /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */
34990e36024fSHong Zhang     if (n == PETSC_DECIDE){
3500357abbc8SBarry Smith       ierr = PetscSplitOwnership(comm,&n,&N);CHKERRQ(ierr);
35010e36024fSHong Zhang     }
3502357abbc8SBarry Smith     ierr = MPI_Scan(&m, &rstart,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr);
3503357abbc8SBarry Smith     rstart -= m;
3504d6bb3c2dSHong Zhang 
3505d6bb3c2dSHong Zhang     ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr);
3506d6bb3c2dSHong Zhang     for (i=0;i<m;i++) {
3507ba8c8a56SBarry Smith       ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr);
3508d6bb3c2dSHong Zhang       ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr);
3509ba8c8a56SBarry Smith       ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr);
3510d6bb3c2dSHong Zhang     }
3511d6bb3c2dSHong Zhang     /* This routine will ONLY return MPIAIJ type matrix */
3512f69a0ea3SMatthew Knepley     ierr = MatCreate(comm,outmat);CHKERRQ(ierr);
3513f69a0ea3SMatthew Knepley     ierr = MatSetSizes(*outmat,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr);
3514d6bb3c2dSHong Zhang     ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr);
3515d6bb3c2dSHong Zhang     ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr);
3516d6bb3c2dSHong Zhang     ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr);
3517d6bb3c2dSHong Zhang 
3518d6bb3c2dSHong Zhang   } else if (scall == MAT_REUSE_MATRIX){
3519d6bb3c2dSHong Zhang     ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr);
3520d6bb3c2dSHong Zhang   } else {
352177431f27SBarry Smith     SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall);
3522d6bb3c2dSHong Zhang   }
3523d6bb3c2dSHong Zhang 
3524d6bb3c2dSHong Zhang   for (i=0;i<m;i++) {
3525ba8c8a56SBarry Smith     ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr);
3526b7940d39SSatish Balay     Ii    = i + rstart;
3527b7940d39SSatish Balay     ierr = MatSetValues(*outmat,1,&Ii,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr);
3528ba8c8a56SBarry Smith     ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr);
3529d6bb3c2dSHong Zhang   }
3530d6bb3c2dSHong Zhang   ierr = MatDestroy(inmat);CHKERRQ(ierr);
3531d6bb3c2dSHong Zhang   ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
3532d6bb3c2dSHong Zhang   ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
353351dd7536SBarry Smith 
3534c5d6d63eSBarry Smith   PetscFunctionReturn(0);
3535c5d6d63eSBarry Smith }
3536c5d6d63eSBarry Smith 
3537c5d6d63eSBarry Smith #undef __FUNCT__
3538c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit"
3539dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile)
3540c5d6d63eSBarry Smith {
3541dfbe8321SBarry Smith   PetscErrorCode    ierr;
354232dcc486SBarry Smith   PetscMPIInt       rank;
3543b1d57f15SBarry Smith   PetscInt          m,N,i,rstart,nnz;
3544de4209c5SBarry Smith   size_t            len;
3545b1d57f15SBarry Smith   const PetscInt    *indx;
3546c5d6d63eSBarry Smith   PetscViewer       out;
3547c5d6d63eSBarry Smith   char              *name;
3548c5d6d63eSBarry Smith   Mat               B;
3549b3cc6726SBarry Smith   const PetscScalar *values;
3550c5d6d63eSBarry Smith 
3551c5d6d63eSBarry Smith   PetscFunctionBegin;
3552c5d6d63eSBarry Smith   ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr);
3553c5d6d63eSBarry Smith   ierr = MatGetSize(A,0,&N);CHKERRQ(ierr);
3554f204ca49SKris Buschelman   /* Should this be the type of the diagonal block of A? */
3555f69a0ea3SMatthew Knepley   ierr = MatCreate(PETSC_COMM_SELF,&B);CHKERRQ(ierr);
3556f69a0ea3SMatthew Knepley   ierr = MatSetSizes(B,m,N,m,N);CHKERRQ(ierr);
3557f204ca49SKris Buschelman   ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr);
3558f204ca49SKris Buschelman   ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr);
3559c5d6d63eSBarry Smith   ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr);
3560c5d6d63eSBarry Smith   for (i=0;i<m;i++) {
3561c5d6d63eSBarry Smith     ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr);
3562c5d6d63eSBarry Smith     ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr);
3563c5d6d63eSBarry Smith     ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr);
3564c5d6d63eSBarry Smith   }
3565c5d6d63eSBarry Smith   ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
3566c5d6d63eSBarry Smith   ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
3567c5d6d63eSBarry Smith 
35687adad957SLisandro Dalcin   ierr = MPI_Comm_rank(((PetscObject)A)->comm,&rank);CHKERRQ(ierr);
3569c5d6d63eSBarry Smith   ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr);
3570c5d6d63eSBarry Smith   ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr);
3571c5d6d63eSBarry Smith   sprintf(name,"%s.%d",outfile,rank);
3572852598b0SBarry Smith   ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,FILE_MODE_APPEND,&out);CHKERRQ(ierr);
3573c5d6d63eSBarry Smith   ierr = PetscFree(name);
3574c5d6d63eSBarry Smith   ierr = MatView(B,out);CHKERRQ(ierr);
3575c5d6d63eSBarry Smith   ierr = PetscViewerDestroy(out);CHKERRQ(ierr);
3576c5d6d63eSBarry Smith   ierr = MatDestroy(B);CHKERRQ(ierr);
3577c5d6d63eSBarry Smith   PetscFunctionReturn(0);
3578c5d6d63eSBarry Smith }
3579e5f2cdd8SHong Zhang 
358051a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat);
358151a7d1a8SHong Zhang #undef __FUNCT__
358251a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI"
3583be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatDestroy_MPIAIJ_SeqsToMPI(Mat A)
358451a7d1a8SHong Zhang {
358551a7d1a8SHong Zhang   PetscErrorCode       ierr;
3586671beff6SHong Zhang   Mat_Merge_SeqsToMPI  *merge;
3587776b82aeSLisandro Dalcin   PetscContainer       container;
358851a7d1a8SHong Zhang 
358951a7d1a8SHong Zhang   PetscFunctionBegin;
3590671beff6SHong Zhang   ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr);
3591671beff6SHong Zhang   if (container) {
3592776b82aeSLisandro Dalcin     ierr = PetscContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr);
359351a7d1a8SHong Zhang     ierr = PetscFree(merge->id_r);CHKERRQ(ierr);
35943e06a4e6SHong Zhang     ierr = PetscFree(merge->len_s);CHKERRQ(ierr);
35953e06a4e6SHong Zhang     ierr = PetscFree(merge->len_r);CHKERRQ(ierr);
359651a7d1a8SHong Zhang     ierr = PetscFree(merge->bi);CHKERRQ(ierr);
359751a7d1a8SHong Zhang     ierr = PetscFree(merge->bj);CHKERRQ(ierr);
359802c68681SHong Zhang     ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr);
359902c68681SHong Zhang     ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr);
360005b42c5fSBarry Smith     ierr = PetscFree(merge->coi);CHKERRQ(ierr);
360105b42c5fSBarry Smith     ierr = PetscFree(merge->coj);CHKERRQ(ierr);
360205b42c5fSBarry Smith     ierr = PetscFree(merge->owners_co);CHKERRQ(ierr);
36032c72b5baSSatish Balay     ierr = PetscFree(merge->rowmap.range);CHKERRQ(ierr);
3604671beff6SHong Zhang 
3605776b82aeSLisandro Dalcin     ierr = PetscContainerDestroy(container);CHKERRQ(ierr);
3606671beff6SHong Zhang     ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr);
3607671beff6SHong Zhang   }
360851a7d1a8SHong Zhang   ierr = PetscFree(merge);CHKERRQ(ierr);
360951a7d1a8SHong Zhang 
361051a7d1a8SHong Zhang   ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr);
361151a7d1a8SHong Zhang   PetscFunctionReturn(0);
361251a7d1a8SHong Zhang }
361351a7d1a8SHong Zhang 
361458cb9c82SHong Zhang #include "src/mat/utils/freespace.h"
3615be0fcf8dSHong Zhang #include "petscbt.h"
36164ebed01fSBarry Smith 
3617e5f2cdd8SHong Zhang #undef __FUNCT__
361838f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPINumeric"
3619e5f2cdd8SHong Zhang /*@C
3620f08fae4eSHong Zhang       MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential
3621e5f2cdd8SHong Zhang                  matrices from each processor
3622e5f2cdd8SHong Zhang 
3623e5f2cdd8SHong Zhang     Collective on MPI_Comm
3624e5f2cdd8SHong Zhang 
3625e5f2cdd8SHong Zhang    Input Parameters:
3626e5f2cdd8SHong Zhang +    comm - the communicators the parallel matrix will live on
3627f08fae4eSHong Zhang .    seqmat - the input sequential matrices
36280e36024fSHong Zhang .    m - number of local rows (or PETSC_DECIDE)
36290e36024fSHong Zhang .    n - number of local columns (or PETSC_DECIDE)
3630e5f2cdd8SHong Zhang -    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
3631e5f2cdd8SHong Zhang 
3632e5f2cdd8SHong Zhang    Output Parameter:
3633f08fae4eSHong Zhang .    mpimat - the parallel matrix generated
3634e5f2cdd8SHong Zhang 
3635e5f2cdd8SHong Zhang     Level: advanced
3636e5f2cdd8SHong Zhang 
3637affca5deSHong Zhang    Notes:
3638affca5deSHong Zhang      The dimensions of the sequential matrix in each processor MUST be the same.
3639affca5deSHong Zhang      The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be
3640affca5deSHong Zhang      destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat.
3641e5f2cdd8SHong Zhang @*/
3642be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat)
364355d1abb9SHong Zhang {
364455d1abb9SHong Zhang   PetscErrorCode       ierr;
36457adad957SLisandro Dalcin   MPI_Comm             comm=((PetscObject)mpimat)->comm;
364655d1abb9SHong Zhang   Mat_SeqAIJ           *a=(Mat_SeqAIJ*)seqmat->data;
3647b1d57f15SBarry Smith   PetscMPIInt          size,rank,taga,*len_s;
3648899cda47SBarry Smith   PetscInt             N=mpimat->cmap.N,i,j,*owners,*ai=a->i,*aj=a->j;
3649b1d57f15SBarry Smith   PetscInt             proc,m;
3650b1d57f15SBarry Smith   PetscInt             **buf_ri,**buf_rj;
3651b1d57f15SBarry Smith   PetscInt             k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj;
3652b1d57f15SBarry Smith   PetscInt             nrows,**buf_ri_k,**nextrow,**nextai;
365355d1abb9SHong Zhang   MPI_Request          *s_waits,*r_waits;
365455d1abb9SHong Zhang   MPI_Status           *status;
3655ce805ee4SHong Zhang   MatScalar            *aa=a->a,**abuf_r,*ba_i;
365655d1abb9SHong Zhang   Mat_Merge_SeqsToMPI  *merge;
3657776b82aeSLisandro Dalcin   PetscContainer       container;
365855d1abb9SHong Zhang 
365955d1abb9SHong Zhang   PetscFunctionBegin;
36604ebed01fSBarry Smith   ierr = PetscLogEventBegin(MAT_Seqstompinum,seqmat,0,0,0);CHKERRQ(ierr);
36613c2c1871SHong Zhang 
366255d1abb9SHong Zhang   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
366355d1abb9SHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
366455d1abb9SHong Zhang 
366555d1abb9SHong Zhang   ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr);
366655d1abb9SHong Zhang   if (container) {
3667776b82aeSLisandro Dalcin     ierr  = PetscContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr);
366855d1abb9SHong Zhang   }
366955d1abb9SHong Zhang   bi     = merge->bi;
367055d1abb9SHong Zhang   bj     = merge->bj;
367155d1abb9SHong Zhang   buf_ri = merge->buf_ri;
367255d1abb9SHong Zhang   buf_rj = merge->buf_rj;
367355d1abb9SHong Zhang 
367455d1abb9SHong Zhang   ierr   = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr);
3675357abbc8SBarry Smith   owners = merge->rowmap.range;
367655d1abb9SHong Zhang   len_s  = merge->len_s;
367755d1abb9SHong Zhang 
367855d1abb9SHong Zhang   /* send and recv matrix values */
367955d1abb9SHong Zhang   /*-----------------------------*/
3680357abbc8SBarry Smith   ierr = PetscObjectGetNewTag((PetscObject)mpimat,&taga);CHKERRQ(ierr);
368155d1abb9SHong Zhang   ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr);
368255d1abb9SHong Zhang 
368355d1abb9SHong Zhang   ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr);
368455d1abb9SHong Zhang   for (proc=0,k=0; proc<size; proc++){
368555d1abb9SHong Zhang     if (!len_s[proc]) continue;
368655d1abb9SHong Zhang     i = owners[proc];
368755d1abb9SHong Zhang     ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr);
368855d1abb9SHong Zhang     k++;
368955d1abb9SHong Zhang   }
369055d1abb9SHong Zhang 
36910c468ba9SBarry Smith   if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr);}
36920c468ba9SBarry Smith   if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr);}
369355d1abb9SHong Zhang   ierr = PetscFree(status);CHKERRQ(ierr);
369455d1abb9SHong Zhang 
369555d1abb9SHong Zhang   ierr = PetscFree(s_waits);CHKERRQ(ierr);
369655d1abb9SHong Zhang   ierr = PetscFree(r_waits);CHKERRQ(ierr);
369755d1abb9SHong Zhang 
369855d1abb9SHong Zhang   /* insert mat values of mpimat */
369955d1abb9SHong Zhang   /*----------------------------*/
370055d1abb9SHong Zhang   ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr);
3701b1d57f15SBarry Smith   ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr);
370255d1abb9SHong Zhang   nextrow = buf_ri_k + merge->nrecv;
370355d1abb9SHong Zhang   nextai  = nextrow + merge->nrecv;
370455d1abb9SHong Zhang 
370555d1abb9SHong Zhang   for (k=0; k<merge->nrecv; k++){
370655d1abb9SHong Zhang     buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */
370755d1abb9SHong Zhang     nrows = *(buf_ri_k[k]);
370855d1abb9SHong Zhang     nextrow[k]  = buf_ri_k[k]+1;  /* next row number of k-th recved i-structure */
370955d1abb9SHong Zhang     nextai[k]   = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure  */
371055d1abb9SHong Zhang   }
371155d1abb9SHong Zhang 
371255d1abb9SHong Zhang   /* set values of ba */
3713357abbc8SBarry Smith   m = merge->rowmap.n;
371455d1abb9SHong Zhang   for (i=0; i<m; i++) {
371555d1abb9SHong Zhang     arow = owners[rank] + i;
371655d1abb9SHong Zhang     bj_i = bj+bi[i];  /* col indices of the i-th row of mpimat */
371755d1abb9SHong Zhang     bnzi = bi[i+1] - bi[i];
371855d1abb9SHong Zhang     ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr);
371955d1abb9SHong Zhang 
372055d1abb9SHong Zhang     /* add local non-zero vals of this proc's seqmat into ba */
372155d1abb9SHong Zhang     anzi = ai[arow+1] - ai[arow];
372255d1abb9SHong Zhang     aj   = a->j + ai[arow];
372355d1abb9SHong Zhang     aa   = a->a + ai[arow];
372455d1abb9SHong Zhang     nextaj = 0;
372555d1abb9SHong Zhang     for (j=0; nextaj<anzi; j++){
372655d1abb9SHong Zhang       if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */
372755d1abb9SHong Zhang         ba_i[j] += aa[nextaj++];
372855d1abb9SHong Zhang       }
372955d1abb9SHong Zhang     }
373055d1abb9SHong Zhang 
373155d1abb9SHong Zhang     /* add received vals into ba */
373255d1abb9SHong Zhang     for (k=0; k<merge->nrecv; k++){ /* k-th received message */
373355d1abb9SHong Zhang       /* i-th row */
373455d1abb9SHong Zhang       if (i == *nextrow[k]) {
373555d1abb9SHong Zhang         anzi = *(nextai[k]+1) - *nextai[k];
373655d1abb9SHong Zhang         aj   = buf_rj[k] + *(nextai[k]);
373755d1abb9SHong Zhang         aa   = abuf_r[k] + *(nextai[k]);
373855d1abb9SHong Zhang         nextaj = 0;
373955d1abb9SHong Zhang         for (j=0; nextaj<anzi; j++){
374055d1abb9SHong Zhang           if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */
374155d1abb9SHong Zhang             ba_i[j] += aa[nextaj++];
374255d1abb9SHong Zhang           }
374355d1abb9SHong Zhang         }
374455d1abb9SHong Zhang         nextrow[k]++; nextai[k]++;
374555d1abb9SHong Zhang       }
374655d1abb9SHong Zhang     }
374755d1abb9SHong Zhang     ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr);
374855d1abb9SHong Zhang   }
374955d1abb9SHong Zhang   ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
375055d1abb9SHong Zhang   ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
375155d1abb9SHong Zhang 
375255d1abb9SHong Zhang   ierr = PetscFree(abuf_r);CHKERRQ(ierr);
375355d1abb9SHong Zhang   ierr = PetscFree(ba_i);CHKERRQ(ierr);
375455d1abb9SHong Zhang   ierr = PetscFree(buf_ri_k);CHKERRQ(ierr);
37554ebed01fSBarry Smith   ierr = PetscLogEventEnd(MAT_Seqstompinum,seqmat,0,0,0);CHKERRQ(ierr);
375655d1abb9SHong Zhang   PetscFunctionReturn(0);
375755d1abb9SHong Zhang }
375838f152feSBarry Smith 
375938f152feSBarry Smith #undef __FUNCT__
376038f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPISymbolic"
3761be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat)
3762e5f2cdd8SHong Zhang {
3763f08fae4eSHong Zhang   PetscErrorCode       ierr;
376455a3bba9SHong Zhang   Mat                  B_mpi;
3765c2234fe3SHong Zhang   Mat_SeqAIJ           *a=(Mat_SeqAIJ*)seqmat->data;
3766b1d57f15SBarry Smith   PetscMPIInt          size,rank,tagi,tagj,*len_s,*len_si,*len_ri;
3767b1d57f15SBarry Smith   PetscInt             **buf_rj,**buf_ri,**buf_ri_k;
3768899cda47SBarry Smith   PetscInt             M=seqmat->rmap.n,N=seqmat->cmap.n,i,*owners,*ai=a->i,*aj=a->j;
3769b1d57f15SBarry Smith   PetscInt             len,proc,*dnz,*onz;
3770b1d57f15SBarry Smith   PetscInt             k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0;
3771b1d57f15SBarry Smith   PetscInt             nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai;
377255d1abb9SHong Zhang   MPI_Request          *si_waits,*sj_waits,*ri_waits,*rj_waits;
377358cb9c82SHong Zhang   MPI_Status           *status;
3774a1a86e44SBarry Smith   PetscFreeSpaceList   free_space=PETSC_NULL,current_space=PETSC_NULL;
3775be0fcf8dSHong Zhang   PetscBT              lnkbt;
377651a7d1a8SHong Zhang   Mat_Merge_SeqsToMPI  *merge;
3777776b82aeSLisandro Dalcin   PetscContainer       container;
377802c68681SHong Zhang 
3779e5f2cdd8SHong Zhang   PetscFunctionBegin;
37804ebed01fSBarry Smith   ierr = PetscLogEventBegin(MAT_Seqstompisym,seqmat,0,0,0);CHKERRQ(ierr);
37813c2c1871SHong Zhang 
378238f152feSBarry Smith   /* make sure it is a PETSc comm */
378338f152feSBarry Smith   ierr = PetscCommDuplicate(comm,&comm,PETSC_NULL);CHKERRQ(ierr);
3784e5f2cdd8SHong Zhang   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
3785e5f2cdd8SHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
378655d1abb9SHong Zhang 
378751a7d1a8SHong Zhang   ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr);
3788c2234fe3SHong Zhang   ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr);
3789e5f2cdd8SHong Zhang 
37906abd8857SHong Zhang   /* determine row ownership */
3791f08fae4eSHong Zhang   /*---------------------------------------------------------*/
3792b167c4dbSHong Zhang   ierr = PetscMapInitialize(comm,&merge->rowmap);CHKERRQ(ierr);
3793899cda47SBarry Smith   merge->rowmap.n = m;
3794899cda47SBarry Smith   merge->rowmap.N = M;
3795fc42d0c8SSatish Balay   merge->rowmap.bs = 1;
37966148ca0dSBarry Smith   ierr = PetscMapSetUp(&merge->rowmap);CHKERRQ(ierr);
3797b1d57f15SBarry Smith   ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr);
3798b1d57f15SBarry Smith   ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr);
379955d1abb9SHong Zhang 
3800357abbc8SBarry Smith   m      = merge->rowmap.n;
3801357abbc8SBarry Smith   M      = merge->rowmap.N;
3802357abbc8SBarry Smith   owners = merge->rowmap.range;
38036abd8857SHong Zhang 
38046abd8857SHong Zhang   /* determine the number of messages to send, their lengths */
38056abd8857SHong Zhang   /*---------------------------------------------------------*/
38063e06a4e6SHong Zhang   len_s  = merge->len_s;
380751a7d1a8SHong Zhang 
38082257cef7SHong Zhang   len = 0;  /* length of buf_si[] */
3809c2234fe3SHong Zhang   merge->nsend = 0;
3810409913e3SHong Zhang   for (proc=0; proc<size; proc++){
38112257cef7SHong Zhang     len_si[proc] = 0;
38123e06a4e6SHong Zhang     if (proc == rank){
38136abd8857SHong Zhang       len_s[proc] = 0;
38143e06a4e6SHong Zhang     } else {
381502c68681SHong Zhang       len_si[proc] = owners[proc+1] - owners[proc] + 1;
38163e06a4e6SHong Zhang       len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */
38173e06a4e6SHong Zhang     }
38183e06a4e6SHong Zhang     if (len_s[proc]) {
3819c2234fe3SHong Zhang       merge->nsend++;
38202257cef7SHong Zhang       nrows = 0;
38212257cef7SHong Zhang       for (i=owners[proc]; i<owners[proc+1]; i++){
38222257cef7SHong Zhang         if (ai[i+1] > ai[i]) nrows++;
38232257cef7SHong Zhang       }
38242257cef7SHong Zhang       len_si[proc] = 2*(nrows+1);
38252257cef7SHong Zhang       len += len_si[proc];
3826409913e3SHong Zhang     }
382758cb9c82SHong Zhang   }
3828409913e3SHong Zhang 
38292257cef7SHong Zhang   /* determine the number and length of messages to receive for ij-structure */
38302257cef7SHong Zhang   /*-------------------------------------------------------------------------*/
383151a7d1a8SHong Zhang   ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr);
383255d1abb9SHong Zhang   ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr);
3833671beff6SHong Zhang 
38343e06a4e6SHong Zhang   /* post the Irecv of j-structure */
38353e06a4e6SHong Zhang   /*-------------------------------*/
38362c72b5baSSatish Balay   ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr);
38373e06a4e6SHong Zhang   ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr);
383802c68681SHong Zhang 
38393e06a4e6SHong Zhang   /* post the Isend of j-structure */
3840affca5deSHong Zhang   /*--------------------------------*/
38412257cef7SHong Zhang   ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr);
384202c68681SHong Zhang   sj_waits = si_waits + merge->nsend;
38433e06a4e6SHong Zhang 
38442257cef7SHong Zhang   for (proc=0, k=0; proc<size; proc++){
3845409913e3SHong Zhang     if (!len_s[proc]) continue;
384602c68681SHong Zhang     i = owners[proc];
3847b1d57f15SBarry Smith     ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr);
384851a7d1a8SHong Zhang     k++;
384951a7d1a8SHong Zhang   }
385051a7d1a8SHong Zhang 
38513e06a4e6SHong Zhang   /* receives and sends of j-structure are complete */
38523e06a4e6SHong Zhang   /*------------------------------------------------*/
38530c468ba9SBarry Smith   if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr);}
38540c468ba9SBarry Smith   if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr);}
385502c68681SHong Zhang 
385602c68681SHong Zhang   /* send and recv i-structure */
385702c68681SHong Zhang   /*---------------------------*/
38582c72b5baSSatish Balay   ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr);
385902c68681SHong Zhang   ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr);
386002c68681SHong Zhang 
3861b1d57f15SBarry Smith   ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr);
38623e06a4e6SHong Zhang   buf_si = buf_s;  /* points to the beginning of k-th msg to be sent */
38632257cef7SHong Zhang   for (proc=0,k=0; proc<size; proc++){
386402c68681SHong Zhang     if (!len_s[proc]) continue;
38653e06a4e6SHong Zhang     /* form outgoing message for i-structure:
38663e06a4e6SHong Zhang          buf_si[0]:                 nrows to be sent
38673e06a4e6SHong Zhang                [1:nrows]:           row index (global)
38683e06a4e6SHong Zhang                [nrows+1:2*nrows+1]: i-structure index
38693e06a4e6SHong Zhang     */
38703e06a4e6SHong Zhang     /*-------------------------------------------*/
38712257cef7SHong Zhang     nrows = len_si[proc]/2 - 1;
38723e06a4e6SHong Zhang     buf_si_i    = buf_si + nrows+1;
38733e06a4e6SHong Zhang     buf_si[0]   = nrows;
38743e06a4e6SHong Zhang     buf_si_i[0] = 0;
38753e06a4e6SHong Zhang     nrows = 0;
38763e06a4e6SHong Zhang     for (i=owners[proc]; i<owners[proc+1]; i++){
38773e06a4e6SHong Zhang       anzi = ai[i+1] - ai[i];
38783e06a4e6SHong Zhang       if (anzi) {
38793e06a4e6SHong Zhang         buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */
38803e06a4e6SHong Zhang         buf_si[nrows+1] = i-owners[proc]; /* local row index */
38813e06a4e6SHong Zhang         nrows++;
38823e06a4e6SHong Zhang       }
38833e06a4e6SHong Zhang     }
3884b1d57f15SBarry Smith     ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr);
388502c68681SHong Zhang     k++;
38862257cef7SHong Zhang     buf_si += len_si[proc];
388702c68681SHong Zhang   }
38882257cef7SHong Zhang 
38890c468ba9SBarry Smith   if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr);}
38900c468ba9SBarry Smith   if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr);}
389102c68681SHong Zhang 
3892ae15b995SBarry Smith   ierr = PetscInfo2(seqmat,"nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr);
38933e06a4e6SHong Zhang   for (i=0; i<merge->nrecv; i++){
3894ae15b995SBarry Smith     ierr = PetscInfo3(seqmat,"recv len_ri=%D, len_rj=%D from [%D]\n",len_ri[i],merge->len_r[i],merge->id_r[i]);CHKERRQ(ierr);
38953e06a4e6SHong Zhang   }
38963e06a4e6SHong Zhang 
38973e06a4e6SHong Zhang   ierr = PetscFree(len_si);CHKERRQ(ierr);
389802c68681SHong Zhang   ierr = PetscFree(len_ri);CHKERRQ(ierr);
389902c68681SHong Zhang   ierr = PetscFree(rj_waits);CHKERRQ(ierr);
39003e06a4e6SHong Zhang   ierr = PetscFree(si_waits);CHKERRQ(ierr);
39012257cef7SHong Zhang   ierr = PetscFree(ri_waits);CHKERRQ(ierr);
39023e06a4e6SHong Zhang   ierr = PetscFree(buf_s);CHKERRQ(ierr);
3903bcc1bcd5SHong Zhang   ierr = PetscFree(status);CHKERRQ(ierr);
390458cb9c82SHong Zhang 
3905bcc1bcd5SHong Zhang   /* compute a local seq matrix in each processor */
3906bcc1bcd5SHong Zhang   /*----------------------------------------------*/
390758cb9c82SHong Zhang   /* allocate bi array and free space for accumulating nonzero column info */
3908b1d57f15SBarry Smith   ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr);
390958cb9c82SHong Zhang   bi[0] = 0;
391058cb9c82SHong Zhang 
3911be0fcf8dSHong Zhang   /* create and initialize a linked list */
3912be0fcf8dSHong Zhang   nlnk = N+1;
3913be0fcf8dSHong Zhang   ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr);
391458cb9c82SHong Zhang 
3915bcc1bcd5SHong Zhang   /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */
391658cb9c82SHong Zhang   len = 0;
3917bcc1bcd5SHong Zhang   len  = ai[owners[rank+1]] - ai[owners[rank]];
3918a1a86e44SBarry Smith   ierr = PetscFreeSpaceGet((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr);
391958cb9c82SHong Zhang   current_space = free_space;
392058cb9c82SHong Zhang 
3921bcc1bcd5SHong Zhang   /* determine symbolic info for each local row */
3922b1d57f15SBarry Smith   ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr);
39233e06a4e6SHong Zhang   nextrow = buf_ri_k + merge->nrecv;
39243e06a4e6SHong Zhang   nextai  = nextrow + merge->nrecv;
39253e06a4e6SHong Zhang   for (k=0; k<merge->nrecv; k++){
39262257cef7SHong Zhang     buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */
39273e06a4e6SHong Zhang     nrows = *buf_ri_k[k];
39283e06a4e6SHong Zhang     nextrow[k]  = buf_ri_k[k] + 1;  /* next row number of k-th recved i-structure */
39292257cef7SHong Zhang     nextai[k]   = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure  */
39303e06a4e6SHong Zhang   }
39312257cef7SHong Zhang 
3932bcc1bcd5SHong Zhang   ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr);
3933bcc1bcd5SHong Zhang   len = 0;
393458cb9c82SHong Zhang   for (i=0;i<m;i++) {
393558cb9c82SHong Zhang     bnzi   = 0;
393658cb9c82SHong Zhang     /* add local non-zero cols of this proc's seqmat into lnk */
393758cb9c82SHong Zhang     arow   = owners[rank] + i;
393858cb9c82SHong Zhang     anzi   = ai[arow+1] - ai[arow];
393958cb9c82SHong Zhang     aj     = a->j + ai[arow];
3940be0fcf8dSHong Zhang     ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr);
394158cb9c82SHong Zhang     bnzi += nlnk;
394258cb9c82SHong Zhang     /* add received col data into lnk */
394351a7d1a8SHong Zhang     for (k=0; k<merge->nrecv; k++){ /* k-th received message */
394455d1abb9SHong Zhang       if (i == *nextrow[k]) { /* i-th row */
39453e06a4e6SHong Zhang         anzi = *(nextai[k]+1) - *nextai[k];
39463e06a4e6SHong Zhang         aj   = buf_rj[k] + *nextai[k];
39473e06a4e6SHong Zhang         ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr);
39483e06a4e6SHong Zhang         bnzi += nlnk;
39493e06a4e6SHong Zhang         nextrow[k]++; nextai[k]++;
39503e06a4e6SHong Zhang       }
395158cb9c82SHong Zhang     }
3952bcc1bcd5SHong Zhang     if (len < bnzi) len = bnzi;  /* =max(bnzi) */
395358cb9c82SHong Zhang 
395458cb9c82SHong Zhang     /* if free space is not available, make more free space */
395558cb9c82SHong Zhang     if (current_space->local_remaining<bnzi) {
3956a1a86e44SBarry Smith       ierr = PetscFreeSpaceGet(current_space->total_array_size,&current_space);CHKERRQ(ierr);
395758cb9c82SHong Zhang       nspacedouble++;
395858cb9c82SHong Zhang     }
395958cb9c82SHong Zhang     /* copy data into free space, then initialize lnk */
3960be0fcf8dSHong Zhang     ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr);
3961bcc1bcd5SHong Zhang     ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr);
3962bcc1bcd5SHong Zhang 
396358cb9c82SHong Zhang     current_space->array           += bnzi;
396458cb9c82SHong Zhang     current_space->local_used      += bnzi;
396558cb9c82SHong Zhang     current_space->local_remaining -= bnzi;
396658cb9c82SHong Zhang 
396758cb9c82SHong Zhang     bi[i+1] = bi[i] + bnzi;
396858cb9c82SHong Zhang   }
3969bcc1bcd5SHong Zhang 
3970bcc1bcd5SHong Zhang   ierr = PetscFree(buf_ri_k);CHKERRQ(ierr);
3971bcc1bcd5SHong Zhang 
3972b1d57f15SBarry Smith   ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr);
3973a1a86e44SBarry Smith   ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr);
3974be0fcf8dSHong Zhang   ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr);
3975409913e3SHong Zhang 
3976bcc1bcd5SHong Zhang   /* create symbolic parallel matrix B_mpi */
3977bcc1bcd5SHong Zhang   /*---------------------------------------*/
3978f69a0ea3SMatthew Knepley   ierr = MatCreate(comm,&B_mpi);CHKERRQ(ierr);
397954b84b50SHong Zhang   if (n==PETSC_DECIDE) {
3980f69a0ea3SMatthew Knepley     ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,N);CHKERRQ(ierr);
398154b84b50SHong Zhang   } else {
3982f69a0ea3SMatthew Knepley     ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr);
398354b84b50SHong Zhang   }
3984bcc1bcd5SHong Zhang   ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr);
3985bcc1bcd5SHong Zhang   ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr);
3986bcc1bcd5SHong Zhang   ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr);
398758cb9c82SHong Zhang 
39886abd8857SHong Zhang   /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */
39896abd8857SHong Zhang   B_mpi->assembled     = PETSC_FALSE;
3990affca5deSHong Zhang   B_mpi->ops->destroy  = MatDestroy_MPIAIJ_SeqsToMPI;
3991affca5deSHong Zhang   merge->bi            = bi;
3992affca5deSHong Zhang   merge->bj            = bj;
399302c68681SHong Zhang   merge->buf_ri        = buf_ri;
399402c68681SHong Zhang   merge->buf_rj        = buf_rj;
3995de0260b3SHong Zhang   merge->coi           = PETSC_NULL;
3996de0260b3SHong Zhang   merge->coj           = PETSC_NULL;
3997de0260b3SHong Zhang   merge->owners_co     = PETSC_NULL;
3998affca5deSHong Zhang 
3999affca5deSHong Zhang   /* attach the supporting struct to B_mpi for reuse */
4000776b82aeSLisandro Dalcin   ierr = PetscContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr);
4001776b82aeSLisandro Dalcin   ierr = PetscContainerSetPointer(container,merge);CHKERRQ(ierr);
4002affca5deSHong Zhang   ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr);
4003affca5deSHong Zhang   *mpimat = B_mpi;
400438f152feSBarry Smith 
400538f152feSBarry Smith   ierr = PetscCommDestroy(&comm);CHKERRQ(ierr);
40064ebed01fSBarry Smith   ierr = PetscLogEventEnd(MAT_Seqstompisym,seqmat,0,0,0);CHKERRQ(ierr);
4007e5f2cdd8SHong Zhang   PetscFunctionReturn(0);
4008e5f2cdd8SHong Zhang }
400925616d81SHong Zhang 
401038f152feSBarry Smith #undef __FUNCT__
401138f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPI"
4012be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat)
401355d1abb9SHong Zhang {
401455d1abb9SHong Zhang   PetscErrorCode   ierr;
401555d1abb9SHong Zhang 
401655d1abb9SHong Zhang   PetscFunctionBegin;
40174ebed01fSBarry Smith   ierr = PetscLogEventBegin(MAT_Seqstompi,seqmat,0,0,0);CHKERRQ(ierr);
401855d1abb9SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
401955d1abb9SHong Zhang     ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr);
402055d1abb9SHong Zhang   }
402155d1abb9SHong Zhang   ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr);
40224ebed01fSBarry Smith   ierr = PetscLogEventEnd(MAT_Seqstompi,seqmat,0,0,0);CHKERRQ(ierr);
402355d1abb9SHong Zhang   PetscFunctionReturn(0);
402455d1abb9SHong Zhang }
40254ebed01fSBarry Smith 
402625616d81SHong Zhang #undef __FUNCT__
402725616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat"
4028bc08b0f1SBarry Smith /*@
402932fba14fSHong Zhang      MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows
403025616d81SHong Zhang 
403132fba14fSHong Zhang     Not Collective
403225616d81SHong Zhang 
403325616d81SHong Zhang    Input Parameters:
403425616d81SHong Zhang +    A - the matrix
403525616d81SHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
403625616d81SHong Zhang 
403725616d81SHong Zhang    Output Parameter:
403825616d81SHong Zhang .    A_loc - the local sequential matrix generated
403925616d81SHong Zhang 
404025616d81SHong Zhang     Level: developer
404125616d81SHong Zhang 
404225616d81SHong Zhang @*/
4043be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc)
404425616d81SHong Zhang {
404525616d81SHong Zhang   PetscErrorCode  ierr;
404601b7ae99SHong Zhang   Mat_MPIAIJ      *mpimat=(Mat_MPIAIJ*)A->data;
404701b7ae99SHong Zhang   Mat_SeqAIJ      *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data;
404801b7ae99SHong Zhang   PetscInt        *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray;
4049dea91ad1SHong Zhang   PetscScalar     *aa=a->a,*ba=b->a,*ca;
4050899cda47SBarry Smith   PetscInt        am=A->rmap.n,i,j,k,cstart=A->cmap.rstart;
40515a7d977cSHong Zhang   PetscInt        *ci,*cj,col,ncols_d,ncols_o,jo;
405225616d81SHong Zhang 
405325616d81SHong Zhang   PetscFunctionBegin;
40544ebed01fSBarry Smith   ierr = PetscLogEventBegin(MAT_Getlocalmat,A,0,0,0);CHKERRQ(ierr);
405501b7ae99SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
4056dea91ad1SHong Zhang     ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr);
4057dea91ad1SHong Zhang     ci[0] = 0;
405801b7ae99SHong Zhang     for (i=0; i<am; i++){
4059dea91ad1SHong Zhang       ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]);
406001b7ae99SHong Zhang     }
4061dea91ad1SHong Zhang     ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr);
4062dea91ad1SHong Zhang     ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr);
4063dea91ad1SHong Zhang     k = 0;
406401b7ae99SHong Zhang     for (i=0; i<am; i++) {
40655a7d977cSHong Zhang       ncols_o = bi[i+1] - bi[i];
40665a7d977cSHong Zhang       ncols_d = ai[i+1] - ai[i];
406701b7ae99SHong Zhang       /* off-diagonal portion of A */
40685a7d977cSHong Zhang       for (jo=0; jo<ncols_o; jo++) {
40695a7d977cSHong Zhang         col = cmap[*bj];
40705a7d977cSHong Zhang         if (col >= cstart) break;
40715a7d977cSHong Zhang         cj[k]   = col; bj++;
40725a7d977cSHong Zhang         ca[k++] = *ba++;
40735a7d977cSHong Zhang       }
40745a7d977cSHong Zhang       /* diagonal portion of A */
40755a7d977cSHong Zhang       for (j=0; j<ncols_d; j++) {
40765a7d977cSHong Zhang         cj[k]   = cstart + *aj++;
40775a7d977cSHong Zhang         ca[k++] = *aa++;
40785a7d977cSHong Zhang       }
40795a7d977cSHong Zhang       /* off-diagonal portion of A */
40805a7d977cSHong Zhang       for (j=jo; j<ncols_o; j++) {
40815a7d977cSHong Zhang         cj[k]   = cmap[*bj++];
40825a7d977cSHong Zhang         ca[k++] = *ba++;
40835a7d977cSHong Zhang       }
408425616d81SHong Zhang     }
4085dea91ad1SHong Zhang     /* put together the new matrix */
4086899cda47SBarry Smith     ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->cmap.N,ci,cj,ca,A_loc);CHKERRQ(ierr);
4087dea91ad1SHong Zhang     /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */
4088dea91ad1SHong Zhang     /* Since these are PETSc arrays, change flags to free them as necessary. */
4089dea91ad1SHong Zhang     mat          = (Mat_SeqAIJ*)(*A_loc)->data;
4090e6b907acSBarry Smith     mat->free_a  = PETSC_TRUE;
4091e6b907acSBarry Smith     mat->free_ij = PETSC_TRUE;
4092dea91ad1SHong Zhang     mat->nonew   = 0;
40935a7d977cSHong Zhang   } else if (scall == MAT_REUSE_MATRIX){
40945a7d977cSHong Zhang     mat=(Mat_SeqAIJ*)(*A_loc)->data;
40955a7d977cSHong Zhang     ci = mat->i; cj = mat->j; ca = mat->a;
40965a7d977cSHong Zhang     for (i=0; i<am; i++) {
40975a7d977cSHong Zhang       /* off-diagonal portion of A */
40985a7d977cSHong Zhang       ncols_o = bi[i+1] - bi[i];
40995a7d977cSHong Zhang       for (jo=0; jo<ncols_o; jo++) {
41005a7d977cSHong Zhang         col = cmap[*bj];
41015a7d977cSHong Zhang         if (col >= cstart) break;
4102f33d1a9aSHong Zhang         *ca++ = *ba++; bj++;
41035a7d977cSHong Zhang       }
41045a7d977cSHong Zhang       /* diagonal portion of A */
4105ecc9b87dSHong Zhang       ncols_d = ai[i+1] - ai[i];
4106ecc9b87dSHong Zhang       for (j=0; j<ncols_d; j++) *ca++ = *aa++;
41075a7d977cSHong Zhang       /* off-diagonal portion of A */
4108f33d1a9aSHong Zhang       for (j=jo; j<ncols_o; j++) {
4109f33d1a9aSHong Zhang         *ca++ = *ba++; bj++;
4110f33d1a9aSHong Zhang       }
41115a7d977cSHong Zhang     }
41125a7d977cSHong Zhang   } else {
41135a7d977cSHong Zhang     SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall);
411425616d81SHong Zhang   }
411501b7ae99SHong Zhang 
41164ebed01fSBarry Smith   ierr = PetscLogEventEnd(MAT_Getlocalmat,A,0,0,0);CHKERRQ(ierr);
411725616d81SHong Zhang   PetscFunctionReturn(0);
411825616d81SHong Zhang }
411925616d81SHong Zhang 
412032fba14fSHong Zhang #undef __FUNCT__
412132fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed"
412232fba14fSHong Zhang /*@C
412332fba14fSHong Zhang      MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns
412432fba14fSHong Zhang 
412532fba14fSHong Zhang     Not Collective
412632fba14fSHong Zhang 
412732fba14fSHong Zhang    Input Parameters:
412832fba14fSHong Zhang +    A - the matrix
412932fba14fSHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
413032fba14fSHong Zhang -    row, col - index sets of rows and columns to extract (or PETSC_NULL)
413132fba14fSHong Zhang 
413232fba14fSHong Zhang    Output Parameter:
413332fba14fSHong Zhang .    A_loc - the local sequential matrix generated
413432fba14fSHong Zhang 
413532fba14fSHong Zhang     Level: developer
413632fba14fSHong Zhang 
413732fba14fSHong Zhang @*/
4138be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc)
413932fba14fSHong Zhang {
414032fba14fSHong Zhang   Mat_MPIAIJ        *a=(Mat_MPIAIJ*)A->data;
414132fba14fSHong Zhang   PetscErrorCode    ierr;
414232fba14fSHong Zhang   PetscInt          i,start,end,ncols,nzA,nzB,*cmap,imark,*idx;
414332fba14fSHong Zhang   IS                isrowa,iscola;
414432fba14fSHong Zhang   Mat               *aloc;
414532fba14fSHong Zhang 
414632fba14fSHong Zhang   PetscFunctionBegin;
41474ebed01fSBarry Smith   ierr = PetscLogEventBegin(MAT_Getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr);
414832fba14fSHong Zhang   if (!row){
4149899cda47SBarry Smith     start = A->rmap.rstart; end = A->rmap.rend;
415032fba14fSHong Zhang     ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr);
415132fba14fSHong Zhang   } else {
415232fba14fSHong Zhang     isrowa = *row;
415332fba14fSHong Zhang   }
415432fba14fSHong Zhang   if (!col){
4155899cda47SBarry Smith     start = A->cmap.rstart;
415632fba14fSHong Zhang     cmap  = a->garray;
4157899cda47SBarry Smith     nzA   = a->A->cmap.n;
4158899cda47SBarry Smith     nzB   = a->B->cmap.n;
415932fba14fSHong Zhang     ierr  = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr);
416032fba14fSHong Zhang     ncols = 0;
416132fba14fSHong Zhang     for (i=0; i<nzB; i++) {
416232fba14fSHong Zhang       if (cmap[i] < start) idx[ncols++] = cmap[i];
416332fba14fSHong Zhang       else break;
416432fba14fSHong Zhang     }
416532fba14fSHong Zhang     imark = i;
416632fba14fSHong Zhang     for (i=0; i<nzA; i++) idx[ncols++] = start + i;
416732fba14fSHong Zhang     for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i];
416832fba14fSHong Zhang     ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr);
416932fba14fSHong Zhang     ierr = PetscFree(idx);CHKERRQ(ierr);
417032fba14fSHong Zhang   } else {
417132fba14fSHong Zhang     iscola = *col;
417232fba14fSHong Zhang   }
417332fba14fSHong Zhang   if (scall != MAT_INITIAL_MATRIX){
417432fba14fSHong Zhang     ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr);
417532fba14fSHong Zhang     aloc[0] = *A_loc;
417632fba14fSHong Zhang   }
417732fba14fSHong Zhang   ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr);
417832fba14fSHong Zhang   *A_loc = aloc[0];
417932fba14fSHong Zhang   ierr = PetscFree(aloc);CHKERRQ(ierr);
418032fba14fSHong Zhang   if (!row){
418132fba14fSHong Zhang     ierr = ISDestroy(isrowa);CHKERRQ(ierr);
418232fba14fSHong Zhang   }
418332fba14fSHong Zhang   if (!col){
418432fba14fSHong Zhang     ierr = ISDestroy(iscola);CHKERRQ(ierr);
418532fba14fSHong Zhang   }
41864ebed01fSBarry Smith   ierr = PetscLogEventEnd(MAT_Getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr);
418732fba14fSHong Zhang   PetscFunctionReturn(0);
418832fba14fSHong Zhang }
418932fba14fSHong Zhang 
419025616d81SHong Zhang #undef __FUNCT__
419125616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols"
419225616d81SHong Zhang /*@C
419332fba14fSHong Zhang     MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A
419425616d81SHong Zhang 
419525616d81SHong Zhang     Collective on Mat
419625616d81SHong Zhang 
419725616d81SHong Zhang    Input Parameters:
4198e240928fSHong Zhang +    A,B - the matrices in mpiaij format
419925616d81SHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
420025616d81SHong Zhang -    rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL)
420125616d81SHong Zhang 
420225616d81SHong Zhang    Output Parameter:
420325616d81SHong Zhang +    rowb, colb - index sets of rows and columns of B to extract
4204899cda47SBarry Smith .    brstart - row index of B_seq from which next B->rmap.n rows are taken from B's local rows
420525616d81SHong Zhang -    B_seq - the sequential matrix generated
420625616d81SHong Zhang 
420725616d81SHong Zhang     Level: developer
420825616d81SHong Zhang 
420925616d81SHong Zhang @*/
4210be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq)
421125616d81SHong Zhang {
4212899cda47SBarry Smith   Mat_MPIAIJ        *a=(Mat_MPIAIJ*)A->data;
421325616d81SHong Zhang   PetscErrorCode    ierr;
4214b1d57f15SBarry Smith   PetscInt          *idx,i,start,ncols,nzA,nzB,*cmap,imark;
421525616d81SHong Zhang   IS                isrowb,iscolb;
421625616d81SHong Zhang   Mat               *bseq;
421725616d81SHong Zhang 
421825616d81SHong Zhang   PetscFunctionBegin;
4219899cda47SBarry Smith   if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){
4220899cda47SBarry Smith     SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->cmap.rstart,A->cmap.rend,B->rmap.rstart,B->rmap.rend);
422125616d81SHong Zhang   }
42224ebed01fSBarry Smith   ierr = PetscLogEventBegin(MAT_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr);
422325616d81SHong Zhang 
422425616d81SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
4225899cda47SBarry Smith     start = A->cmap.rstart;
422625616d81SHong Zhang     cmap  = a->garray;
4227899cda47SBarry Smith     nzA   = a->A->cmap.n;
4228899cda47SBarry Smith     nzB   = a->B->cmap.n;
4229b1d57f15SBarry Smith     ierr  = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr);
423025616d81SHong Zhang     ncols = 0;
42310390132cSHong Zhang     for (i=0; i<nzB; i++) {  /* row < local row index */
423225616d81SHong Zhang       if (cmap[i] < start) idx[ncols++] = cmap[i];
423325616d81SHong Zhang       else break;
423425616d81SHong Zhang     }
423525616d81SHong Zhang     imark = i;
42360390132cSHong Zhang     for (i=0; i<nzA; i++) idx[ncols++] = start + i;  /* local rows */
42370390132cSHong Zhang     for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */
423825616d81SHong Zhang     ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr);
423925616d81SHong Zhang     ierr = PetscFree(idx);CHKERRQ(ierr);
424025616d81SHong Zhang     *brstart = imark;
4241899cda47SBarry Smith     ierr = ISCreateStride(PETSC_COMM_SELF,B->cmap.N,0,1,&iscolb);CHKERRQ(ierr);
424225616d81SHong Zhang   } else {
424325616d81SHong Zhang     if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX");
424425616d81SHong Zhang     isrowb = *rowb; iscolb = *colb;
424525616d81SHong Zhang     ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr);
424625616d81SHong Zhang     bseq[0] = *B_seq;
424725616d81SHong Zhang   }
424825616d81SHong Zhang   ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr);
424925616d81SHong Zhang   *B_seq = bseq[0];
425025616d81SHong Zhang   ierr = PetscFree(bseq);CHKERRQ(ierr);
425125616d81SHong Zhang   if (!rowb){
425225616d81SHong Zhang     ierr = ISDestroy(isrowb);CHKERRQ(ierr);
425325616d81SHong Zhang   } else {
425425616d81SHong Zhang     *rowb = isrowb;
425525616d81SHong Zhang   }
425625616d81SHong Zhang   if (!colb){
425725616d81SHong Zhang     ierr = ISDestroy(iscolb);CHKERRQ(ierr);
425825616d81SHong Zhang   } else {
425925616d81SHong Zhang     *colb = iscolb;
426025616d81SHong Zhang   }
42614ebed01fSBarry Smith   ierr = PetscLogEventEnd(MAT_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr);
426225616d81SHong Zhang   PetscFunctionReturn(0);
426325616d81SHong Zhang }
4264429d309bSHong Zhang 
4265a61c8c0fSHong Zhang #undef __FUNCT__
4266a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols"
4267429d309bSHong Zhang /*@C
4268429d309bSHong Zhang     MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns
426901b7ae99SHong Zhang     of the OFF-DIAGONAL portion of local A
4270429d309bSHong Zhang 
4271429d309bSHong Zhang     Collective on Mat
4272429d309bSHong Zhang 
4273429d309bSHong Zhang    Input Parameters:
4274429d309bSHong Zhang +    A,B - the matrices in mpiaij format
427587025532SHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
427687025532SHong Zhang .    startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL)
427787025532SHong Zhang -    bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL)
4278429d309bSHong Zhang 
4279429d309bSHong Zhang    Output Parameter:
428087025532SHong Zhang +    B_oth - the sequential matrix generated
4281429d309bSHong Zhang 
4282429d309bSHong Zhang     Level: developer
4283429d309bSHong Zhang 
4284429d309bSHong Zhang @*/
4285be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth)
4286429d309bSHong Zhang {
4287a6b2eed2SHong Zhang   VecScatter_MPI_General *gen_to,*gen_from;
4288429d309bSHong Zhang   PetscErrorCode         ierr;
4289899cda47SBarry Smith   Mat_MPIAIJ             *a=(Mat_MPIAIJ*)A->data;
429087025532SHong Zhang   Mat_SeqAIJ             *b_oth;
4291a6b2eed2SHong Zhang   VecScatter             ctx=a->Mvctx;
42927adad957SLisandro Dalcin   MPI_Comm               comm=((PetscObject)ctx)->comm;
42937adad957SLisandro Dalcin   PetscMPIInt            *rprocs,*sprocs,tag=((PetscObject)ctx)->tag,rank;
4294899cda47SBarry Smith   PetscInt               *rowlen,*bufj,*bufJ,ncols,aBn=a->B->cmap.n,row,*b_othi,*b_othj;
429587025532SHong Zhang   PetscScalar            *rvalues,*svalues,*b_otha,*bufa,*bufA;
4296e42f35eeSHong Zhang   PetscInt               i,j,k,l,ll,nrecvs,nsends,nrows,*srow,*rstarts,*rstartsj = 0,*sstarts,*sstartsj,len;
4297910ba992SMatthew Knepley   MPI_Request            *rwaits = PETSC_NULL,*swaits = PETSC_NULL;
429887025532SHong Zhang   MPI_Status             *sstatus,rstatus;
4299aa5bb8c0SSatish Balay   PetscMPIInt            jj;
4300e42f35eeSHong Zhang   PetscInt               *cols,sbs,rbs;
4301ba8c8a56SBarry Smith   PetscScalar            *vals;
4302429d309bSHong Zhang 
4303429d309bSHong Zhang   PetscFunctionBegin;
4304899cda47SBarry Smith   if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){
4305899cda47SBarry Smith     SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%d, %d) != (%d,%d)",A->cmap.rstart,A->cmap.rend,B->rmap.rstart,B->rmap.rend);
4306429d309bSHong Zhang   }
43074ebed01fSBarry Smith   ierr = PetscLogEventBegin(MAT_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr);
4308a6b2eed2SHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
4309a6b2eed2SHong Zhang 
4310a6b2eed2SHong Zhang   gen_to   = (VecScatter_MPI_General*)ctx->todata;
4311a6b2eed2SHong Zhang   gen_from = (VecScatter_MPI_General*)ctx->fromdata;
4312e42f35eeSHong Zhang   rvalues  = gen_from->values; /* holds the length of receiving row */
4313e42f35eeSHong Zhang   svalues  = gen_to->values;   /* holds the length of sending row */
4314a6b2eed2SHong Zhang   nrecvs   = gen_from->n;
4315a6b2eed2SHong Zhang   nsends   = gen_to->n;
4316d7ee0231SBarry Smith 
4317d7ee0231SBarry Smith   ierr = PetscMalloc2(nrecvs,MPI_Request,&rwaits,nsends,MPI_Request,&swaits);CHKERRQ(ierr);
4318a6b2eed2SHong Zhang   srow     = gen_to->indices;   /* local row index to be sent */
4319a6b2eed2SHong Zhang   sstarts  = gen_to->starts;
4320a6b2eed2SHong Zhang   sprocs   = gen_to->procs;
4321a6b2eed2SHong Zhang   sstatus  = gen_to->sstatus;
4322e42f35eeSHong Zhang   sbs      = gen_to->bs;
4323e42f35eeSHong Zhang   rstarts  = gen_from->starts;
4324e42f35eeSHong Zhang   rprocs   = gen_from->procs;
4325e42f35eeSHong Zhang   rbs      = gen_from->bs;
4326429d309bSHong Zhang 
4327dea91ad1SHong Zhang   if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX;
4328429d309bSHong Zhang   if (scall == MAT_INITIAL_MATRIX){
4329a6b2eed2SHong Zhang     /* i-array */
4330a6b2eed2SHong Zhang     /*---------*/
4331a6b2eed2SHong Zhang     /*  post receives */
4332a6b2eed2SHong Zhang     for (i=0; i<nrecvs; i++){
4333e42f35eeSHong Zhang       rowlen = (PetscInt*)rvalues + rstarts[i]*rbs;
4334e42f35eeSHong Zhang       nrows = (rstarts[i+1]-rstarts[i])*rbs; /* num of indices to be received */
433587025532SHong Zhang       ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr);
4336429d309bSHong Zhang     }
4337a6b2eed2SHong Zhang 
4338a6b2eed2SHong Zhang     /* pack the outgoing message */
433987025532SHong Zhang     ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr);
4340a6b2eed2SHong Zhang     rstartsj = sstartsj + nsends +1;
4341a6b2eed2SHong Zhang     sstartsj[0] = 0;  rstartsj[0] = 0;
4342a6b2eed2SHong Zhang     len = 0; /* total length of j or a array to be sent */
4343a6b2eed2SHong Zhang     k = 0;
4344a6b2eed2SHong Zhang     for (i=0; i<nsends; i++){
4345e42f35eeSHong Zhang       rowlen = (PetscInt*)svalues + sstarts[i]*sbs;
4346e42f35eeSHong Zhang       nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */
434787025532SHong Zhang       for (j=0; j<nrows; j++) {
4348899cda47SBarry Smith         row = srow[k] + B->rmap.range[rank]; /* global row idx */
4349e42f35eeSHong Zhang         for (l=0; l<sbs; l++){
4350e42f35eeSHong Zhang           ierr = MatGetRow_MPIAIJ(B,row+l,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */
4351e42f35eeSHong Zhang           rowlen[j*sbs+l] = ncols;
4352e42f35eeSHong Zhang           len += ncols;
4353e42f35eeSHong Zhang           ierr = MatRestoreRow_MPIAIJ(B,row+l,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr);
4354e42f35eeSHong Zhang         }
4355a6b2eed2SHong Zhang         k++;
4356429d309bSHong Zhang       }
4357e42f35eeSHong Zhang       ierr = MPI_Isend(rowlen,nrows*sbs,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr);
4358dea91ad1SHong Zhang       sstartsj[i+1] = len;  /* starting point of (i+1)-th outgoing msg in bufj and bufa */
4359429d309bSHong Zhang     }
436087025532SHong Zhang     /* recvs and sends of i-array are completed */
436187025532SHong Zhang     i = nrecvs;
436287025532SHong Zhang     while (i--) {
4363aa5bb8c0SSatish Balay       ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr);
436487025532SHong Zhang     }
43650c468ba9SBarry Smith     if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);}
4366e42f35eeSHong Zhang 
4367a6b2eed2SHong Zhang     /* allocate buffers for sending j and a arrays */
4368a6b2eed2SHong Zhang     ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr);
4369a6b2eed2SHong Zhang     ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr);
4370a6b2eed2SHong Zhang 
437187025532SHong Zhang     /* create i-array of B_oth */
437287025532SHong Zhang     ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr);
437387025532SHong Zhang     b_othi[0] = 0;
4374a6b2eed2SHong Zhang     len = 0; /* total length of j or a array to be received */
4375a6b2eed2SHong Zhang     k = 0;
4376a6b2eed2SHong Zhang     for (i=0; i<nrecvs; i++){
4377fd0ff01cSHong Zhang       rowlen = (PetscInt*)rvalues + rstarts[i]*rbs;
4378e42f35eeSHong Zhang       nrows = rbs*(rstarts[i+1]-rstarts[i]); /* num of rows to be recieved */
437987025532SHong Zhang       for (j=0; j<nrows; j++) {
438087025532SHong Zhang         b_othi[k+1] = b_othi[k] + rowlen[j];
4381a6b2eed2SHong Zhang         len += rowlen[j]; k++;
4382a6b2eed2SHong Zhang       }
4383dea91ad1SHong Zhang       rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */
4384a6b2eed2SHong Zhang     }
4385a6b2eed2SHong Zhang 
438687025532SHong Zhang     /* allocate space for j and a arrrays of B_oth */
438787025532SHong Zhang     ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr);
438887025532SHong Zhang     ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr);
4389a6b2eed2SHong Zhang 
439087025532SHong Zhang     /* j-array */
439187025532SHong Zhang     /*---------*/
4392a6b2eed2SHong Zhang     /*  post receives of j-array */
4393a6b2eed2SHong Zhang     for (i=0; i<nrecvs; i++){
439487025532SHong Zhang       nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */
439587025532SHong Zhang       ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr);
4396a6b2eed2SHong Zhang     }
4397e42f35eeSHong Zhang 
4398e42f35eeSHong Zhang     /* pack the outgoing message j-array */
4399a6b2eed2SHong Zhang     k = 0;
4400a6b2eed2SHong Zhang     for (i=0; i<nsends; i++){
4401e42f35eeSHong Zhang       nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */
4402a6b2eed2SHong Zhang       bufJ = bufj+sstartsj[i];
440387025532SHong Zhang       for (j=0; j<nrows; j++) {
4404899cda47SBarry Smith         row  = srow[k++] + B->rmap.range[rank]; /* global row idx */
4405e42f35eeSHong Zhang         for (ll=0; ll<sbs; ll++){
4406e42f35eeSHong Zhang           ierr = MatGetRow_MPIAIJ(B,row+ll,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr);
4407a6b2eed2SHong Zhang           for (l=0; l<ncols; l++){
4408a6b2eed2SHong Zhang             *bufJ++ = cols[l];
440987025532SHong Zhang           }
4410e42f35eeSHong Zhang           ierr = MatRestoreRow_MPIAIJ(B,row+ll,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr);
4411e42f35eeSHong Zhang         }
441287025532SHong Zhang       }
441387025532SHong Zhang       ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr);
441487025532SHong Zhang     }
441587025532SHong Zhang 
441687025532SHong Zhang     /* recvs and sends of j-array are completed */
441787025532SHong Zhang     i = nrecvs;
441887025532SHong Zhang     while (i--) {
4419aa5bb8c0SSatish Balay       ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr);
442087025532SHong Zhang     }
44210c468ba9SBarry Smith     if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);}
442287025532SHong Zhang   } else if (scall == MAT_REUSE_MATRIX){
442387025532SHong Zhang     sstartsj = *startsj;
442487025532SHong Zhang     rstartsj = sstartsj + nsends +1;
442587025532SHong Zhang     bufa     = *bufa_ptr;
442687025532SHong Zhang     b_oth    = (Mat_SeqAIJ*)(*B_oth)->data;
442787025532SHong Zhang     b_otha   = b_oth->a;
442887025532SHong Zhang   } else {
442987025532SHong Zhang     SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container");
443087025532SHong Zhang   }
443187025532SHong Zhang 
443287025532SHong Zhang   /* a-array */
443387025532SHong Zhang   /*---------*/
443487025532SHong Zhang   /*  post receives of a-array */
443587025532SHong Zhang   for (i=0; i<nrecvs; i++){
443687025532SHong Zhang     nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */
443787025532SHong Zhang     ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr);
443887025532SHong Zhang   }
4439e42f35eeSHong Zhang 
4440e42f35eeSHong Zhang   /* pack the outgoing message a-array */
444187025532SHong Zhang   k = 0;
444287025532SHong Zhang   for (i=0; i<nsends; i++){
4443e42f35eeSHong Zhang     nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */
444487025532SHong Zhang     bufA = bufa+sstartsj[i];
444587025532SHong Zhang     for (j=0; j<nrows; j++) {
4446899cda47SBarry Smith       row  = srow[k++] + B->rmap.range[rank]; /* global row idx */
4447e42f35eeSHong Zhang       for (ll=0; ll<sbs; ll++){
4448e42f35eeSHong Zhang         ierr = MatGetRow_MPIAIJ(B,row+ll,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr);
444987025532SHong Zhang         for (l=0; l<ncols; l++){
4450a6b2eed2SHong Zhang           *bufA++ = vals[l];
4451a6b2eed2SHong Zhang         }
4452e42f35eeSHong Zhang         ierr = MatRestoreRow_MPIAIJ(B,row+ll,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr);
4453e42f35eeSHong Zhang       }
4454a6b2eed2SHong Zhang     }
445587025532SHong Zhang     ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr);
4456a6b2eed2SHong Zhang   }
445787025532SHong Zhang   /* recvs and sends of a-array are completed */
445887025532SHong Zhang   i = nrecvs;
445987025532SHong Zhang   while (i--) {
4460aa5bb8c0SSatish Balay     ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr);
446187025532SHong Zhang   }
44620c468ba9SBarry Smith   if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);}
4463d7ee0231SBarry Smith   ierr = PetscFree2(rwaits,swaits);CHKERRQ(ierr);
4464a6b2eed2SHong Zhang 
446587025532SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
4466a6b2eed2SHong Zhang     /* put together the new matrix */
4467899cda47SBarry Smith     ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->cmap.N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr);
4468a6b2eed2SHong Zhang 
4469a6b2eed2SHong Zhang     /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */
4470a6b2eed2SHong Zhang     /* Since these are PETSc arrays, change flags to free them as necessary. */
447187025532SHong Zhang     b_oth          = (Mat_SeqAIJ *)(*B_oth)->data;
4472e6b907acSBarry Smith     b_oth->free_a  = PETSC_TRUE;
4473e6b907acSBarry Smith     b_oth->free_ij = PETSC_TRUE;
447487025532SHong Zhang     b_oth->nonew   = 0;
4475a6b2eed2SHong Zhang 
4476a6b2eed2SHong Zhang     ierr = PetscFree(bufj);CHKERRQ(ierr);
4477dea91ad1SHong Zhang     if (!startsj || !bufa_ptr){
4478dea91ad1SHong Zhang       ierr = PetscFree(sstartsj);CHKERRQ(ierr);
4479dea91ad1SHong Zhang       ierr = PetscFree(bufa_ptr);CHKERRQ(ierr);
4480dea91ad1SHong Zhang     } else {
448187025532SHong Zhang       *startsj  = sstartsj;
448287025532SHong Zhang       *bufa_ptr = bufa;
448387025532SHong Zhang     }
4484dea91ad1SHong Zhang   }
44854ebed01fSBarry Smith   ierr = PetscLogEventEnd(MAT_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr);
4486429d309bSHong Zhang   PetscFunctionReturn(0);
4487429d309bSHong Zhang }
4488ccd8e176SBarry Smith 
448943eb5e2fSMatthew Knepley #undef __FUNCT__
449043eb5e2fSMatthew Knepley #define __FUNCT__ "MatGetCommunicationStructs"
449143eb5e2fSMatthew Knepley /*@C
449243eb5e2fSMatthew Knepley   MatGetCommunicationStructs - Provides access to the communication structures used in matrix-vector multiplication.
449343eb5e2fSMatthew Knepley 
449443eb5e2fSMatthew Knepley   Not Collective
449543eb5e2fSMatthew Knepley 
449643eb5e2fSMatthew Knepley   Input Parameters:
449743eb5e2fSMatthew Knepley . A - The matrix in mpiaij format
449843eb5e2fSMatthew Knepley 
449943eb5e2fSMatthew Knepley   Output Parameter:
450043eb5e2fSMatthew Knepley + lvec - The local vector holding off-process values from the argument to a matrix-vector product
450143eb5e2fSMatthew Knepley . colmap - A map from global column index to local index into lvec
450243eb5e2fSMatthew Knepley - multScatter - A scatter from the argument of a matrix-vector product to lvec
450343eb5e2fSMatthew Knepley 
450443eb5e2fSMatthew Knepley   Level: developer
450543eb5e2fSMatthew Knepley 
450643eb5e2fSMatthew Knepley @*/
450743eb5e2fSMatthew Knepley #if defined (PETSC_USE_CTABLE)
450843eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscTable *colmap, VecScatter *multScatter)
450943eb5e2fSMatthew Knepley #else
451043eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscInt *colmap[], VecScatter *multScatter)
451143eb5e2fSMatthew Knepley #endif
451243eb5e2fSMatthew Knepley {
451343eb5e2fSMatthew Knepley   Mat_MPIAIJ *a;
451443eb5e2fSMatthew Knepley 
451543eb5e2fSMatthew Knepley   PetscFunctionBegin;
451643eb5e2fSMatthew Knepley   PetscValidHeaderSpecific(A, MAT_COOKIE, 1);
451743eb5e2fSMatthew Knepley   PetscValidPointer(lvec, 2)
451843eb5e2fSMatthew Knepley   PetscValidPointer(colmap, 3)
451943eb5e2fSMatthew Knepley   PetscValidPointer(multScatter, 4)
452043eb5e2fSMatthew Knepley   a = (Mat_MPIAIJ *) A->data;
452143eb5e2fSMatthew Knepley   if (lvec) *lvec = a->lvec;
452243eb5e2fSMatthew Knepley   if (colmap) *colmap = a->colmap;
452343eb5e2fSMatthew Knepley   if (multScatter) *multScatter = a->Mvctx;
452443eb5e2fSMatthew Knepley   PetscFunctionReturn(0);
452543eb5e2fSMatthew Knepley }
452643eb5e2fSMatthew Knepley 
452717667f90SBarry Smith EXTERN_C_BEGIN
452817667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICRL(Mat,MatType,MatReuse,Mat*);
452917667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICSRPERM(Mat,MatType,MatReuse,Mat*);
453017667f90SBarry Smith EXTERN_C_END
453117667f90SBarry Smith 
4532ccd8e176SBarry Smith /*MC
4533ccd8e176SBarry Smith    MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices.
4534ccd8e176SBarry Smith 
4535ccd8e176SBarry Smith    Options Database Keys:
4536ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions()
4537ccd8e176SBarry Smith 
4538ccd8e176SBarry Smith   Level: beginner
4539ccd8e176SBarry Smith 
4540175b88e8SBarry Smith .seealso: MatCreateMPIAIJ()
4541ccd8e176SBarry Smith M*/
4542ccd8e176SBarry Smith 
4543ccd8e176SBarry Smith EXTERN_C_BEGIN
4544ccd8e176SBarry Smith #undef __FUNCT__
4545ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ"
4546be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatCreate_MPIAIJ(Mat B)
4547ccd8e176SBarry Smith {
4548ccd8e176SBarry Smith   Mat_MPIAIJ     *b;
4549ccd8e176SBarry Smith   PetscErrorCode ierr;
4550ccd8e176SBarry Smith   PetscMPIInt    size;
4551ccd8e176SBarry Smith 
4552ccd8e176SBarry Smith   PetscFunctionBegin;
45537adad957SLisandro Dalcin   ierr = MPI_Comm_size(((PetscObject)B)->comm,&size);CHKERRQ(ierr);
4554ccd8e176SBarry Smith 
455538f2d2fdSLisandro Dalcin   ierr            = PetscNewLog(B,Mat_MPIAIJ,&b);CHKERRQ(ierr);
4556ccd8e176SBarry Smith   B->data         = (void*)b;
4557ccd8e176SBarry Smith   ierr            = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr);
4558ccd8e176SBarry Smith   B->factor       = 0;
4559899cda47SBarry Smith   B->rmap.bs      = 1;
4560ccd8e176SBarry Smith   B->assembled    = PETSC_FALSE;
4561ccd8e176SBarry Smith   B->mapping      = 0;
4562ccd8e176SBarry Smith 
4563ccd8e176SBarry Smith   B->insertmode      = NOT_SET_VALUES;
4564ccd8e176SBarry Smith   b->size            = size;
45657adad957SLisandro Dalcin   ierr = MPI_Comm_rank(((PetscObject)B)->comm,&b->rank);CHKERRQ(ierr);
4566ccd8e176SBarry Smith 
4567ccd8e176SBarry Smith   /* build cache for off array entries formed */
45687adad957SLisandro Dalcin   ierr = MatStashCreate_Private(((PetscObject)B)->comm,1,&B->stash);CHKERRQ(ierr);
4569ccd8e176SBarry Smith   b->donotstash  = PETSC_FALSE;
4570ccd8e176SBarry Smith   b->colmap      = 0;
4571ccd8e176SBarry Smith   b->garray      = 0;
4572ccd8e176SBarry Smith   b->roworiented = PETSC_TRUE;
4573ccd8e176SBarry Smith 
4574ccd8e176SBarry Smith   /* stuff used for matrix vector multiply */
4575ccd8e176SBarry Smith   b->lvec      = PETSC_NULL;
4576ccd8e176SBarry Smith   b->Mvctx     = PETSC_NULL;
4577ccd8e176SBarry Smith 
4578ccd8e176SBarry Smith   /* stuff for MatGetRow() */
4579ccd8e176SBarry Smith   b->rowindices   = 0;
4580ccd8e176SBarry Smith   b->rowvalues    = 0;
4581ccd8e176SBarry Smith   b->getrowactive = PETSC_FALSE;
4582ccd8e176SBarry Smith 
4583ccd8e176SBarry Smith 
4584ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C",
4585ccd8e176SBarry Smith                                      "MatStoreValues_MPIAIJ",
4586ccd8e176SBarry Smith                                      MatStoreValues_MPIAIJ);CHKERRQ(ierr);
4587ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C",
4588ccd8e176SBarry Smith                                      "MatRetrieveValues_MPIAIJ",
4589ccd8e176SBarry Smith                                      MatRetrieveValues_MPIAIJ);CHKERRQ(ierr);
4590ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C",
4591ccd8e176SBarry Smith 				     "MatGetDiagonalBlock_MPIAIJ",
4592ccd8e176SBarry Smith                                      MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr);
4593ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C",
4594ccd8e176SBarry Smith 				     "MatIsTranspose_MPIAIJ",
4595ccd8e176SBarry Smith 				     MatIsTranspose_MPIAIJ);CHKERRQ(ierr);
4596ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C",
4597ccd8e176SBarry Smith 				     "MatMPIAIJSetPreallocation_MPIAIJ",
4598ccd8e176SBarry Smith 				     MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr);
4599ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",
4600ccd8e176SBarry Smith 				     "MatMPIAIJSetPreallocationCSR_MPIAIJ",
4601ccd8e176SBarry Smith 				     MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr);
4602ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C",
4603ccd8e176SBarry Smith 				     "MatDiagonalScaleLocal_MPIAIJ",
4604ccd8e176SBarry Smith 				     MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr);
460517667f90SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicsrperm_C",
460617667f90SBarry Smith                                      "MatConvert_MPIAIJ_MPICSRPERM",
460717667f90SBarry Smith                                       MatConvert_MPIAIJ_MPICSRPERM);CHKERRQ(ierr);
460817667f90SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicrl_C",
460917667f90SBarry Smith                                      "MatConvert_MPIAIJ_MPICRL",
461017667f90SBarry Smith                                       MatConvert_MPIAIJ_MPICRL);CHKERRQ(ierr);
461117667f90SBarry Smith   ierr = PetscObjectChangeTypeName((PetscObject)B,MATMPIAIJ);CHKERRQ(ierr);
4612ccd8e176SBarry Smith   PetscFunctionReturn(0);
4613ccd8e176SBarry Smith }
4614ccd8e176SBarry Smith EXTERN_C_END
461581824310SBarry Smith 
461603bfb495SBarry Smith #undef __FUNCT__
461703bfb495SBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithSplitArrays"
461858d36128SBarry Smith /*@
461903bfb495SBarry Smith      MatCreateMPIAIJWithSplitArrays - creates a MPI AIJ matrix using arrays that contain the "diagonal"
462003bfb495SBarry Smith          and "off-diagonal" part of the matrix in CSR format.
462103bfb495SBarry Smith 
462203bfb495SBarry Smith    Collective on MPI_Comm
462303bfb495SBarry Smith 
462403bfb495SBarry Smith    Input Parameters:
462503bfb495SBarry Smith +  comm - MPI communicator
462603bfb495SBarry Smith .  m - number of local rows (Cannot be PETSC_DECIDE)
462703bfb495SBarry Smith .  n - This value should be the same as the local size used in creating the
462803bfb495SBarry Smith        x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have
462903bfb495SBarry Smith        calculated if N is given) For square matrices n is almost always m.
463003bfb495SBarry Smith .  M - number of global rows (or PETSC_DETERMINE to have calculated if m is given)
463103bfb495SBarry Smith .  N - number of global columns (or PETSC_DETERMINE to have calculated if n is given)
463203bfb495SBarry Smith .   i - row indices for "diagonal" portion of matrix
463303bfb495SBarry Smith .   j - column indices
463403bfb495SBarry Smith .   a - matrix values
463503bfb495SBarry Smith .   oi - row indices for "off-diagonal" portion of matrix
463603bfb495SBarry Smith .   oj - column indices
463703bfb495SBarry Smith -   oa - matrix values
463803bfb495SBarry Smith 
463903bfb495SBarry Smith    Output Parameter:
464003bfb495SBarry Smith .   mat - the matrix
464103bfb495SBarry Smith 
464203bfb495SBarry Smith    Level: advanced
464303bfb495SBarry Smith 
464403bfb495SBarry Smith    Notes:
464503bfb495SBarry Smith        The i, j, and a arrays ARE NOT copied by this routine into the internal format used by PETSc.
464603bfb495SBarry Smith 
464703bfb495SBarry Smith        The i and j indices are 0 based
464803bfb495SBarry Smith 
464903bfb495SBarry Smith        See MatCreateMPIAIJ() for the definition of "diagonal" and "off-diagonal" portion of the matrix
465003bfb495SBarry Smith 
465103bfb495SBarry Smith 
465203bfb495SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
465303bfb495SBarry Smith 
465403bfb495SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(),
46558d7a6e47SBarry Smith           MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithArrays()
465603bfb495SBarry Smith @*/
46578d7a6e47SBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIAIJWithSplitArrays(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt i[],PetscInt j[],PetscScalar a[],
465803bfb495SBarry Smith 								PetscInt oi[], PetscInt oj[],PetscScalar oa[],Mat *mat)
465903bfb495SBarry Smith {
466003bfb495SBarry Smith   PetscErrorCode ierr;
466103bfb495SBarry Smith   Mat_MPIAIJ     *maij;
466203bfb495SBarry Smith 
466303bfb495SBarry Smith  PetscFunctionBegin;
466403bfb495SBarry Smith   if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative");
466503bfb495SBarry Smith   if (i[0]) {
466603bfb495SBarry Smith     SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0");
466703bfb495SBarry Smith   }
466803bfb495SBarry Smith   if (oi[0]) {
466903bfb495SBarry Smith     SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"oi (row indices) must start with 0");
467003bfb495SBarry Smith   }
467103bfb495SBarry Smith   ierr = MatCreate(comm,mat);CHKERRQ(ierr);
467203bfb495SBarry Smith   ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr);
467303bfb495SBarry Smith   ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr);
467403bfb495SBarry Smith   maij = (Mat_MPIAIJ*) (*mat)->data;
46758d7a6e47SBarry Smith   maij->donotstash     = PETSC_TRUE;
46768d7a6e47SBarry Smith   (*mat)->preallocated = PETSC_TRUE;
467703bfb495SBarry Smith 
467803bfb495SBarry Smith   (*mat)->rmap.bs = (*mat)->cmap.bs = 1;
46796148ca0dSBarry Smith   ierr = PetscMapSetUp(&(*mat)->rmap);CHKERRQ(ierr);
46806148ca0dSBarry Smith   ierr = PetscMapSetUp(&(*mat)->cmap);CHKERRQ(ierr);
468103bfb495SBarry Smith 
468203bfb495SBarry Smith   ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,n,i,j,a,&maij->A);CHKERRQ(ierr);
468303bfb495SBarry Smith   ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,(*mat)->cmap.N,oi,oj,oa,&maij->B);CHKERRQ(ierr);
468403bfb495SBarry Smith 
46858d7a6e47SBarry Smith   ierr = MatAssemblyBegin(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
46868d7a6e47SBarry Smith   ierr = MatAssemblyEnd(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
46878d7a6e47SBarry Smith   ierr = MatAssemblyBegin(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
46888d7a6e47SBarry Smith   ierr = MatAssemblyEnd(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
46898d7a6e47SBarry Smith 
469003bfb495SBarry Smith   ierr = MatAssemblyBegin(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
469103bfb495SBarry Smith   ierr = MatAssemblyEnd(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
469203bfb495SBarry Smith   PetscFunctionReturn(0);
469303bfb495SBarry Smith }
469403bfb495SBarry Smith 
469581824310SBarry Smith /*
469681824310SBarry Smith     Special version for direct calls from Fortran
469781824310SBarry Smith */
469881824310SBarry Smith #if defined(PETSC_HAVE_FORTRAN_CAPS)
469981824310SBarry Smith #define matsetvaluesmpiaij_ MATSETVALUESMPIAIJ
470081824310SBarry Smith #elif !defined(PETSC_HAVE_FORTRAN_UNDERSCORE)
470181824310SBarry Smith #define matsetvaluesmpiaij_ matsetvaluesmpiaij
470281824310SBarry Smith #endif
470381824310SBarry Smith 
470481824310SBarry Smith /* Change these macros so can be used in void function */
470581824310SBarry Smith #undef CHKERRQ
47067adad957SLisandro Dalcin #define CHKERRQ(ierr) CHKERRABORT(((PetscObject)mat)->comm,ierr)
470781824310SBarry Smith #undef SETERRQ2
47087adad957SLisandro Dalcin #define SETERRQ2(ierr,b,c,d) CHKERRABORT(((PetscObject)mat)->comm,ierr)
470981824310SBarry Smith #undef SETERRQ
47107adad957SLisandro Dalcin #define SETERRQ(ierr,b) CHKERRABORT(((PetscObject)mat)->comm,ierr)
471181824310SBarry Smith 
471281824310SBarry Smith EXTERN_C_BEGIN
471381824310SBarry Smith #undef __FUNCT__
471481824310SBarry Smith #define __FUNCT__ "matsetvaluesmpiaij_"
47151f6cc5b2SSatish Balay void PETSC_STDCALL matsetvaluesmpiaij_(Mat *mmat,PetscInt *mm,const PetscInt im[],PetscInt *mn,const PetscInt in[],const PetscScalar v[],InsertMode *maddv,PetscErrorCode *_ierr)
471681824310SBarry Smith {
471781824310SBarry Smith   Mat            mat = *mmat;
471881824310SBarry Smith   PetscInt       m = *mm, n = *mn;
471981824310SBarry Smith   InsertMode     addv = *maddv;
472081824310SBarry Smith   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
472181824310SBarry Smith   PetscScalar    value;
472281824310SBarry Smith   PetscErrorCode ierr;
4723899cda47SBarry Smith 
472481824310SBarry Smith   MatPreallocated(mat);
472581824310SBarry Smith   if (mat->insertmode == NOT_SET_VALUES) {
472681824310SBarry Smith     mat->insertmode = addv;
472781824310SBarry Smith   }
472881824310SBarry Smith #if defined(PETSC_USE_DEBUG)
472981824310SBarry Smith   else if (mat->insertmode != addv) {
473081824310SBarry Smith     SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Cannot mix add values and insert values");
473181824310SBarry Smith   }
473281824310SBarry Smith #endif
473381824310SBarry Smith   {
4734899cda47SBarry Smith   PetscInt       i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend;
4735899cda47SBarry Smith   PetscInt       cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col;
473681824310SBarry Smith   PetscTruth     roworiented = aij->roworiented;
473781824310SBarry Smith 
473881824310SBarry Smith   /* Some Variables required in the macro */
473981824310SBarry Smith   Mat            A = aij->A;
474081824310SBarry Smith   Mat_SeqAIJ     *a = (Mat_SeqAIJ*)A->data;
474181824310SBarry Smith   PetscInt       *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j;
474281824310SBarry Smith   PetscScalar    *aa = a->a;
474381824310SBarry Smith   PetscTruth     ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE);
474481824310SBarry Smith   Mat            B = aij->B;
474581824310SBarry Smith   Mat_SeqAIJ     *b = (Mat_SeqAIJ*)B->data;
4746899cda47SBarry Smith   PetscInt       *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->rmap.n,am = aij->A->rmap.n;
474781824310SBarry Smith   PetscScalar    *ba = b->a;
474881824310SBarry Smith 
474981824310SBarry Smith   PetscInt       *rp1,*rp2,ii,nrow1,nrow2,_i,rmax1,rmax2,N,low1,high1,low2,high2,t,lastcol1,lastcol2;
475081824310SBarry Smith   PetscInt       nonew = a->nonew;
475181824310SBarry Smith   PetscScalar    *ap1,*ap2;
475281824310SBarry Smith 
475381824310SBarry Smith   PetscFunctionBegin;
475481824310SBarry Smith   for (i=0; i<m; i++) {
475581824310SBarry Smith     if (im[i] < 0) continue;
475681824310SBarry Smith #if defined(PETSC_USE_DEBUG)
4757899cda47SBarry Smith     if (im[i] >= mat->rmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->rmap.N-1);
475881824310SBarry Smith #endif
475981824310SBarry Smith     if (im[i] >= rstart && im[i] < rend) {
476081824310SBarry Smith       row      = im[i] - rstart;
476181824310SBarry Smith       lastcol1 = -1;
476281824310SBarry Smith       rp1      = aj + ai[row];
476381824310SBarry Smith       ap1      = aa + ai[row];
476481824310SBarry Smith       rmax1    = aimax[row];
476581824310SBarry Smith       nrow1    = ailen[row];
476681824310SBarry Smith       low1     = 0;
476781824310SBarry Smith       high1    = nrow1;
476881824310SBarry Smith       lastcol2 = -1;
476981824310SBarry Smith       rp2      = bj + bi[row];
477081824310SBarry Smith       ap2      = ba + bi[row];
477181824310SBarry Smith       rmax2    = bimax[row];
477281824310SBarry Smith       nrow2    = bilen[row];
477381824310SBarry Smith       low2     = 0;
477481824310SBarry Smith       high2    = nrow2;
477581824310SBarry Smith 
477681824310SBarry Smith       for (j=0; j<n; j++) {
477781824310SBarry Smith         if (roworiented) value = v[i*n+j]; else value = v[i+j*m];
477881824310SBarry Smith         if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue;
477981824310SBarry Smith         if (in[j] >= cstart && in[j] < cend){
478081824310SBarry Smith           col = in[j] - cstart;
478181824310SBarry Smith           MatSetValues_SeqAIJ_A_Private(row,col,value,addv);
478281824310SBarry Smith         } else if (in[j] < 0) continue;
478381824310SBarry Smith #if defined(PETSC_USE_DEBUG)
4784899cda47SBarry Smith         else if (in[j] >= mat->cmap.N) {SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->cmap.N-1);}
478581824310SBarry Smith #endif
478681824310SBarry Smith         else {
478781824310SBarry Smith           if (mat->was_assembled) {
478881824310SBarry Smith             if (!aij->colmap) {
478981824310SBarry Smith               ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr);
479081824310SBarry Smith             }
479181824310SBarry Smith #if defined (PETSC_USE_CTABLE)
479281824310SBarry Smith             ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr);
479381824310SBarry Smith 	    col--;
479481824310SBarry Smith #else
479581824310SBarry Smith             col = aij->colmap[in[j]] - 1;
479681824310SBarry Smith #endif
479781824310SBarry Smith             if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) {
479881824310SBarry Smith               ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr);
479981824310SBarry Smith               col =  in[j];
480081824310SBarry Smith               /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */
480181824310SBarry Smith               B = aij->B;
480281824310SBarry Smith               b = (Mat_SeqAIJ*)B->data;
480381824310SBarry Smith               bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j;
480481824310SBarry Smith               rp2      = bj + bi[row];
480581824310SBarry Smith               ap2      = ba + bi[row];
480681824310SBarry Smith               rmax2    = bimax[row];
480781824310SBarry Smith               nrow2    = bilen[row];
480881824310SBarry Smith               low2     = 0;
480981824310SBarry Smith               high2    = nrow2;
4810899cda47SBarry Smith               bm       = aij->B->rmap.n;
481181824310SBarry Smith               ba = b->a;
481281824310SBarry Smith             }
481381824310SBarry Smith           } else col = in[j];
481481824310SBarry Smith           MatSetValues_SeqAIJ_B_Private(row,col,value,addv);
481581824310SBarry Smith         }
481681824310SBarry Smith       }
481781824310SBarry Smith     } else {
481881824310SBarry Smith       if (!aij->donotstash) {
481981824310SBarry Smith         if (roworiented) {
482081824310SBarry Smith           if (ignorezeroentries && v[i*n] == 0.0) continue;
482181824310SBarry Smith           ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr);
482281824310SBarry Smith         } else {
482381824310SBarry Smith           if (ignorezeroentries && v[i] == 0.0) continue;
482481824310SBarry Smith           ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr);
482581824310SBarry Smith         }
482681824310SBarry Smith       }
482781824310SBarry Smith     }
482881824310SBarry Smith   }}
482981824310SBarry Smith   PetscFunctionReturnVoid();
483081824310SBarry Smith }
483181824310SBarry Smith EXTERN_C_END
483203bfb495SBarry Smith 
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