xref: /petsc/src/mat/impls/sbaij/seq/sbaij.c (revision 854ce69b31eecaec02632e265405c6229e3f3488)
149b5e25fSSatish Balay 
249b5e25fSSatish Balay /*
3a1373b80SHong Zhang     Defines the basic matrix operations for the SBAIJ (compressed row)
449b5e25fSSatish Balay   matrix storage format.
549b5e25fSSatish Balay */
6c6db04a5SJed Brown #include <../src/mat/impls/baij/seq/baij.h>         /*I "petscmat.h" I*/
7c6db04a5SJed Brown #include <../src/mat/impls/sbaij/seq/sbaij.h>
8c6db04a5SJed Brown #include <petscblaslapack.h>
949b5e25fSSatish Balay 
10c6db04a5SJed Brown #include <../src/mat/impls/sbaij/seq/relax.h>
1170dcbbb9SBarry Smith #define USESHORT
12c6db04a5SJed Brown #include <../src/mat/impls/sbaij/seq/relax.h>
1370dcbbb9SBarry Smith 
14ace3abfcSBarry Smith extern PetscErrorCode MatSeqSBAIJSetNumericFactorization_inplace(Mat,PetscBool);
15b5b17502SBarry Smith 
1649b5e25fSSatish Balay /*
1749b5e25fSSatish Balay      Checks for missing diagonals
1849b5e25fSSatish Balay */
194a2ae208SSatish Balay #undef __FUNCT__
204a2ae208SSatish Balay #define __FUNCT__ "MatMissingDiagonal_SeqSBAIJ"
21ace3abfcSBarry Smith PetscErrorCode MatMissingDiagonal_SeqSBAIJ(Mat A,PetscBool  *missing,PetscInt *dd)
2249b5e25fSSatish Balay {
23045c9aa0SHong Zhang   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
246849ba73SBarry Smith   PetscErrorCode ierr;
257734d3b5SMatthew G. Knepley   PetscInt       *diag,*ii = a->i,i;
2649b5e25fSSatish Balay 
2749b5e25fSSatish Balay   PetscFunctionBegin;
28045c9aa0SHong Zhang   ierr     = MatMarkDiagonal_SeqSBAIJ(A);CHKERRQ(ierr);
292af78befSBarry Smith   *missing = PETSC_FALSE;
307734d3b5SMatthew G. Knepley   if (A->rmap->n > 0 && !ii) {
31358d2f5dSShri Abhyankar     *missing = PETSC_TRUE;
32358d2f5dSShri Abhyankar     if (dd) *dd = 0;
33358d2f5dSShri Abhyankar     PetscInfo(A,"Matrix has no entries therefore is missing diagonal");
34358d2f5dSShri Abhyankar   } else {
35358d2f5dSShri Abhyankar     diag = a->diag;
3649b5e25fSSatish Balay     for (i=0; i<a->mbs; i++) {
377734d3b5SMatthew G. Knepley       if (diag[i] >= ii[i+1]) {
382af78befSBarry Smith         *missing = PETSC_TRUE;
392af78befSBarry Smith         if (dd) *dd = i;
402af78befSBarry Smith         break;
412af78befSBarry Smith       }
4249b5e25fSSatish Balay     }
43358d2f5dSShri Abhyankar   }
4449b5e25fSSatish Balay   PetscFunctionReturn(0);
4549b5e25fSSatish Balay }
4649b5e25fSSatish Balay 
474a2ae208SSatish Balay #undef __FUNCT__
484a2ae208SSatish Balay #define __FUNCT__ "MatMarkDiagonal_SeqSBAIJ"
49dfbe8321SBarry Smith PetscErrorCode MatMarkDiagonal_SeqSBAIJ(Mat A)
5049b5e25fSSatish Balay {
51045c9aa0SHong Zhang   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
526849ba73SBarry Smith   PetscErrorCode ierr;
5348dd3d27SHong Zhang   PetscInt       i,j;
5449b5e25fSSatish Balay 
5549b5e25fSSatish Balay   PetscFunctionBegin;
5609f38230SBarry Smith   if (!a->diag) {
57785e854fSJed Brown     ierr         = PetscMalloc1(a->mbs,&a->diag);CHKERRQ(ierr);
583bb1ff40SBarry Smith     ierr         = PetscLogObjectMemory((PetscObject)A,a->mbs*sizeof(PetscInt));CHKERRQ(ierr);
59c760cd28SBarry Smith     a->free_diag = PETSC_TRUE;
6009f38230SBarry Smith   }
6148dd3d27SHong Zhang   for (i=0; i<a->mbs; i++) {
6248dd3d27SHong Zhang     a->diag[i] = a->i[i+1];
6348dd3d27SHong Zhang     for (j=a->i[i]; j<a->i[i+1]; j++) {
6448dd3d27SHong Zhang       if (a->j[j] == i) {
6548dd3d27SHong Zhang         a->diag[i] = j;
6648dd3d27SHong Zhang         break;
6748dd3d27SHong Zhang       }
6848dd3d27SHong Zhang     }
6948dd3d27SHong Zhang   }
7049b5e25fSSatish Balay   PetscFunctionReturn(0);
7149b5e25fSSatish Balay }
7249b5e25fSSatish Balay 
734a2ae208SSatish Balay #undef __FUNCT__
744a2ae208SSatish Balay #define __FUNCT__ "MatGetRowIJ_SeqSBAIJ"
751a83f524SJed Brown static PetscErrorCode MatGetRowIJ_SeqSBAIJ(Mat A,PetscInt oshift,PetscBool symmetric,PetscBool blockcompressed,PetscInt *nn,const PetscInt *inia[],const PetscInt *inja[],PetscBool  *done)
7649b5e25fSSatish Balay {
77a6ece127SHong Zhang   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
78d0f46423SBarry Smith   PetscInt       i,j,n = a->mbs,nz = a->i[n],bs = A->rmap->bs;
791a83f524SJed Brown   PetscInt       **ia = (PetscInt**)inia,**ja = (PetscInt**)inja;
808f7157efSSatish Balay   PetscErrorCode ierr;
8149b5e25fSSatish Balay 
8249b5e25fSSatish Balay   PetscFunctionBegin;
83d3e5a4abSHong Zhang   *nn = n;
84a1373b80SHong Zhang   if (!ia) PetscFunctionReturn(0);
858f7157efSSatish Balay   if (!blockcompressed) {
868f7157efSSatish Balay     /* malloc & create the natural set of indices */
87dcca6d9dSJed Brown     ierr = PetscMalloc2((n+1)*bs,ia,nz*bs,ja);CHKERRQ(ierr);
888f7157efSSatish Balay     for (i=0; i<n+1; i++) {
898f7157efSSatish Balay       for (j=0; j<bs; j++) {
908f7157efSSatish Balay         *ia[i*bs+j] = a->i[i]*bs+j+oshift;
918f7157efSSatish Balay       }
928f7157efSSatish Balay     }
938f7157efSSatish Balay     for (i=0; i<nz; i++) {
948f7157efSSatish Balay       for (j=0; j<bs; j++) {
958f7157efSSatish Balay         *ja[i*bs+j] = a->j[i]*bs+j+oshift;
968f7157efSSatish Balay       }
978f7157efSSatish Balay     }
988f7157efSSatish Balay   } else { /* blockcompressed */
99a6ece127SHong Zhang     if (oshift == 1) {
100a6ece127SHong Zhang       /* temporarily add 1 to i and j indices */
1016c6c5352SBarry Smith       for (i=0; i<nz; i++) a->j[i]++;
102a1373b80SHong Zhang       for (i=0; i<n+1; i++) a->i[i]++;
1038f7157efSSatish Balay     }
104a1373b80SHong Zhang     *ia = a->i; *ja = a->j;
105a6ece127SHong Zhang   }
10649b5e25fSSatish Balay   PetscFunctionReturn(0);
10749b5e25fSSatish Balay }
10849b5e25fSSatish Balay 
1094a2ae208SSatish Balay #undef __FUNCT__
1104a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRowIJ_SeqSBAIJ"
1111a83f524SJed Brown static PetscErrorCode MatRestoreRowIJ_SeqSBAIJ(Mat A,PetscInt oshift,PetscBool symmetric,PetscBool blockcompressed,PetscInt *nn,const PetscInt *ia[],const PetscInt *ja[],PetscBool  *done)
11249b5e25fSSatish Balay {
113b7aaefc3SHong Zhang   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
1148f7157efSSatish Balay   PetscInt       i,n = a->mbs,nz = a->i[n];
1158f7157efSSatish Balay   PetscErrorCode ierr;
116a6ece127SHong Zhang 
11749b5e25fSSatish Balay   PetscFunctionBegin;
11849b5e25fSSatish Balay   if (!ia) PetscFunctionReturn(0);
119a6ece127SHong Zhang 
1208f7157efSSatish Balay   if (!blockcompressed) {
1218f7157efSSatish Balay     ierr = PetscFree2(*ia,*ja);CHKERRQ(ierr);
1228f7157efSSatish Balay   } else if (oshift == 1) { /* blockcompressed */
1236c6c5352SBarry Smith     for (i=0; i<nz; i++) a->j[i]--;
124a6ece127SHong Zhang     for (i=0; i<n+1; i++) a->i[i]--;
125a6ece127SHong Zhang   }
126a6ece127SHong Zhang   PetscFunctionReturn(0);
12749b5e25fSSatish Balay }
12849b5e25fSSatish Balay 
1294a2ae208SSatish Balay #undef __FUNCT__
1304a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_SeqSBAIJ"
131dfbe8321SBarry Smith PetscErrorCode MatDestroy_SeqSBAIJ(Mat A)
13249b5e25fSSatish Balay {
13349b5e25fSSatish Balay   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
134dfbe8321SBarry Smith   PetscErrorCode ierr;
13549b5e25fSSatish Balay 
13649b5e25fSSatish Balay   PetscFunctionBegin;
137a9f03627SSatish Balay #if defined(PETSC_USE_LOG)
138d0f46423SBarry Smith   PetscLogObjectState((PetscObject)A,"Rows=%D, NZ=%D",A->rmap->N,a->nz);
139a9f03627SSatish Balay #endif
140e6b907acSBarry Smith   ierr = MatSeqXAIJFreeAIJ(A,&a->a,&a->j,&a->i);CHKERRQ(ierr);
1417f53bb6cSHong Zhang   if (a->free_diag) {ierr = PetscFree(a->diag);CHKERRQ(ierr);}
1426bf464f9SBarry Smith   ierr = ISDestroy(&a->row);CHKERRQ(ierr);
1436bf464f9SBarry Smith   ierr = ISDestroy(&a->col);CHKERRQ(ierr);
1446bf464f9SBarry Smith   ierr = ISDestroy(&a->icol);CHKERRQ(ierr);
145c31cb41cSBarry Smith   ierr = PetscFree(a->idiag);CHKERRQ(ierr);
146c31cb41cSBarry Smith   ierr = PetscFree(a->inode.size);CHKERRQ(ierr);
147c760cd28SBarry Smith   if (a->free_imax_ilen) {ierr = PetscFree2(a->imax,a->ilen);CHKERRQ(ierr);}
14805b42c5fSBarry Smith   ierr = PetscFree(a->solve_work);CHKERRQ(ierr);
14941f059aeSBarry Smith   ierr = PetscFree(a->sor_work);CHKERRQ(ierr);
15005b42c5fSBarry Smith   ierr = PetscFree(a->solves_work);CHKERRQ(ierr);
15105b42c5fSBarry Smith   ierr = PetscFree(a->mult_work);CHKERRQ(ierr);
15205b42c5fSBarry Smith   ierr = PetscFree(a->saved_values);CHKERRQ(ierr);
1534da8f245SBarry Smith   if (a->free_jshort) {ierr = PetscFree(a->jshort);CHKERRQ(ierr);}
1541a3463dfSHong Zhang   ierr = PetscFree(a->inew);CHKERRQ(ierr);
1556bf464f9SBarry Smith   ierr = MatDestroy(&a->parent);CHKERRQ(ierr);
156bf0cc555SLisandro Dalcin   ierr = PetscFree(A->data);CHKERRQ(ierr);
157901853e0SKris Buschelman 
158dbd8c25aSHong Zhang   ierr = PetscObjectChangeTypeName((PetscObject)A,0);CHKERRQ(ierr);
159bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)A,"MatStoreValues_C",NULL);CHKERRQ(ierr);
160bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)A,"MatRetrieveValues_C",NULL);CHKERRQ(ierr);
161bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)A,"MatSeqSBAIJSetColumnIndices_C",NULL);CHKERRQ(ierr);
162bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_seqsbaij_seqaij_C",NULL);CHKERRQ(ierr);
163bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_seqsbaij_seqbaij_C",NULL);CHKERRQ(ierr);
164bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)A,"MatSeqSBAIJSetPreallocation_C",NULL);CHKERRQ(ierr);
16538f409ebSLisandro Dalcin   ierr = PetscObjectComposeFunction((PetscObject)A,"MatSeqSBAIJSetPreallocationCSR_C",NULL);CHKERRQ(ierr);
166bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)A,"MatConvert_seqsbaij_seqsbstrm_C",NULL);CHKERRQ(ierr);
16749b5e25fSSatish Balay   PetscFunctionReturn(0);
16849b5e25fSSatish Balay }
16949b5e25fSSatish Balay 
1704a2ae208SSatish Balay #undef __FUNCT__
1714a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_SeqSBAIJ"
172ace3abfcSBarry Smith PetscErrorCode MatSetOption_SeqSBAIJ(Mat A,MatOption op,PetscBool flg)
17349b5e25fSSatish Balay {
174045c9aa0SHong Zhang   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
17563ba0a88SBarry Smith   PetscErrorCode ierr;
17649b5e25fSSatish Balay 
17749b5e25fSSatish Balay   PetscFunctionBegin;
1784d9d31abSKris Buschelman   switch (op) {
1794d9d31abSKris Buschelman   case MAT_ROW_ORIENTED:
1804e0d8c25SBarry Smith     a->roworiented = flg;
1814d9d31abSKris Buschelman     break;
182a9817697SBarry Smith   case MAT_KEEP_NONZERO_PATTERN:
183a9817697SBarry Smith     a->keepnonzeropattern = flg;
1844d9d31abSKris Buschelman     break;
185512a5fc5SBarry Smith   case MAT_NEW_NONZERO_LOCATIONS:
186512a5fc5SBarry Smith     a->nonew = (flg ? 0 : 1);
1874d9d31abSKris Buschelman     break;
1884d9d31abSKris Buschelman   case MAT_NEW_NONZERO_LOCATION_ERR:
1894e0d8c25SBarry Smith     a->nonew = (flg ? -1 : 0);
1904d9d31abSKris Buschelman     break;
1914d9d31abSKris Buschelman   case MAT_NEW_NONZERO_ALLOCATION_ERR:
1924e0d8c25SBarry Smith     a->nonew = (flg ? -2 : 0);
1934d9d31abSKris Buschelman     break;
19428b2fa4aSMatthew Knepley   case MAT_UNUSED_NONZERO_LOCATION_ERR:
19528b2fa4aSMatthew Knepley     a->nounused = (flg ? -1 : 0);
19628b2fa4aSMatthew Knepley     break;
1974e0d8c25SBarry Smith   case MAT_NEW_DIAGONALS:
1984d9d31abSKris Buschelman   case MAT_IGNORE_OFF_PROC_ENTRIES:
1994d9d31abSKris Buschelman   case MAT_USE_HASH_TABLE:
200290bbb0aSBarry Smith     ierr = PetscInfo1(A,"Option %s ignored\n",MatOptions[op]);CHKERRQ(ierr);
2014d9d31abSKris Buschelman     break;
2029a4540c5SBarry Smith   case MAT_HERMITIAN:
203e32f2f54SBarry Smith     if (!A->assembled) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONGSTATE,"Must call MatAssemblyEnd() first");
2040bc54ff2SBarry Smith     if (A->cmap->n < 65536 && A->cmap->bs == 1) {
205eeffb40dSHong Zhang       A->ops->mult = MatMult_SeqSBAIJ_1_Hermitian_ushort;
2060bc54ff2SBarry Smith     } else if (A->cmap->bs == 1) {
207eeffb40dSHong Zhang       A->ops->mult = MatMult_SeqSBAIJ_1_Hermitian;
208e32f2f54SBarry Smith     } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support for Hermitian with block size greater than 1");
209eeffb40dSHong Zhang     break;
2103d472b54SHong Zhang   case MAT_SPD:
2115021d80fSJed Brown     /* These options are handled directly by MatSetOption() */
2123d472b54SHong Zhang     break;
21377e54ba9SKris Buschelman   case MAT_SYMMETRIC:
21477e54ba9SKris Buschelman   case MAT_STRUCTURALLY_SYMMETRIC:
2159a4540c5SBarry Smith   case MAT_SYMMETRY_ETERNAL:
2164dcd73b1SHong Zhang     /* These options are handled directly by MatSetOption() */
217290bbb0aSBarry Smith     break;
218941593c8SHong Zhang   case MAT_IGNORE_LOWER_TRIANGULAR:
2194e0d8c25SBarry Smith     a->ignore_ltriangular = flg;
220941593c8SHong Zhang     break;
221941593c8SHong Zhang   case MAT_ERROR_LOWER_TRIANGULAR:
2224e0d8c25SBarry Smith     a->ignore_ltriangular = flg;
22377e54ba9SKris Buschelman     break;
224f5edf698SHong Zhang   case MAT_GETROW_UPPERTRIANGULAR:
2254e0d8c25SBarry Smith     a->getrow_utriangular = flg;
226f5edf698SHong Zhang     break;
2274d9d31abSKris Buschelman   default:
228e32f2f54SBarry Smith     SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"unknown option %d",op);
22949b5e25fSSatish Balay   }
23049b5e25fSSatish Balay   PetscFunctionReturn(0);
23149b5e25fSSatish Balay }
23249b5e25fSSatish Balay 
2334a2ae208SSatish Balay #undef __FUNCT__
2344a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_SeqSBAIJ"
23552768537SHong Zhang PetscErrorCode MatGetRow_SeqSBAIJ(Mat A,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
23649b5e25fSSatish Balay {
23749b5e25fSSatish Balay   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
2386849ba73SBarry Smith   PetscErrorCode ierr;
23949b5e25fSSatish Balay 
24049b5e25fSSatish Balay   PetscFunctionBegin;
241e32f2f54SBarry Smith   if (A && !a->getrow_utriangular) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"MatGetRow is not supported for SBAIJ matrix format. Getting the upper triangular part of row, run with -mat_getrow_uppertriangular, call MatSetOption(mat,MAT_GETROW_UPPERTRIANGULAR,PETSC_TRUE) or MatGetRowUpperTriangular()");
24252768537SHong Zhang 
243f5edf698SHong Zhang   /* Get the upper triangular part of the row */
24452768537SHong Zhang   ierr = MatGetRow_SeqBAIJ_private(A,row,nz,idx,v,a->i,a->j,a->a);CHKERRQ(ierr);
24549b5e25fSSatish Balay   PetscFunctionReturn(0);
24649b5e25fSSatish Balay }
24749b5e25fSSatish Balay 
2484a2ae208SSatish Balay #undef __FUNCT__
2494a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_SeqSBAIJ"
25013f74950SBarry Smith PetscErrorCode MatRestoreRow_SeqSBAIJ(Mat A,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
25149b5e25fSSatish Balay {
252dfbe8321SBarry Smith   PetscErrorCode ierr;
25349b5e25fSSatish Balay 
25449b5e25fSSatish Balay   PetscFunctionBegin;
25505b42c5fSBarry Smith   if (idx) {ierr = PetscFree(*idx);CHKERRQ(ierr);}
25605b42c5fSBarry Smith   if (v)   {ierr = PetscFree(*v);CHKERRQ(ierr);}
25749b5e25fSSatish Balay   PetscFunctionReturn(0);
25849b5e25fSSatish Balay }
25949b5e25fSSatish Balay 
2604a2ae208SSatish Balay #undef __FUNCT__
261f5edf698SHong Zhang #define __FUNCT__ "MatGetRowUpperTriangular_SeqSBAIJ"
262f5edf698SHong Zhang PetscErrorCode MatGetRowUpperTriangular_SeqSBAIJ(Mat A)
263f5edf698SHong Zhang {
264f5edf698SHong Zhang   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
265f5edf698SHong Zhang 
266f5edf698SHong Zhang   PetscFunctionBegin;
267f5edf698SHong Zhang   a->getrow_utriangular = PETSC_TRUE;
268f5edf698SHong Zhang   PetscFunctionReturn(0);
269f5edf698SHong Zhang }
270f5edf698SHong Zhang #undef __FUNCT__
271f5edf698SHong Zhang #define __FUNCT__ "MatRestoreRowUpperTriangular_SeqSBAIJ"
272f5edf698SHong Zhang PetscErrorCode MatRestoreRowUpperTriangular_SeqSBAIJ(Mat A)
273f5edf698SHong Zhang {
274f5edf698SHong Zhang   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
275f5edf698SHong Zhang 
276f5edf698SHong Zhang   PetscFunctionBegin;
277f5edf698SHong Zhang   a->getrow_utriangular = PETSC_FALSE;
278f5edf698SHong Zhang   PetscFunctionReturn(0);
279f5edf698SHong Zhang }
280f5edf698SHong Zhang 
281f5edf698SHong Zhang #undef __FUNCT__
2824a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_SeqSBAIJ"
283fc4dec0aSBarry Smith PetscErrorCode MatTranspose_SeqSBAIJ(Mat A,MatReuse reuse,Mat *B)
28449b5e25fSSatish Balay {
285dfbe8321SBarry Smith   PetscErrorCode ierr;
2865fd66863SKarl Rupp 
28749b5e25fSSatish Balay   PetscFunctionBegin;
288815cbec1SBarry Smith   if (reuse == MAT_INITIAL_MATRIX || *B != A) {
289999d9058SBarry Smith     ierr = MatDuplicate(A,MAT_COPY_VALUES,B);CHKERRQ(ierr);
290fc4dec0aSBarry Smith   }
2918115998fSBarry Smith   PetscFunctionReturn(0);
29249b5e25fSSatish Balay }
29349b5e25fSSatish Balay 
2944a2ae208SSatish Balay #undef __FUNCT__
2954a2ae208SSatish Balay #define __FUNCT__ "MatView_SeqSBAIJ_ASCII"
2967da1fb6eSBarry Smith PetscErrorCode MatView_SeqSBAIJ_ASCII(Mat A,PetscViewer viewer)
29749b5e25fSSatish Balay {
29849b5e25fSSatish Balay   Mat_SeqSBAIJ      *a = (Mat_SeqSBAIJ*)A->data;
299dfbe8321SBarry Smith   PetscErrorCode    ierr;
300d0f46423SBarry Smith   PetscInt          i,j,bs = A->rmap->bs,k,l,bs2=a->bs2;
301f3ef73ceSBarry Smith   PetscViewerFormat format;
302121deb67SSatish Balay   PetscInt          *diag;
30349b5e25fSSatish Balay 
30449b5e25fSSatish Balay   PetscFunctionBegin;
305b0a32e0cSBarry Smith   ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr);
306456192e2SBarry Smith   if (format == PETSC_VIEWER_ASCII_INFO || format == PETSC_VIEWER_ASCII_INFO_DETAIL) {
30777431f27SBarry Smith     ierr = PetscViewerASCIIPrintf(viewer,"  block size is %D\n",bs);CHKERRQ(ierr);
308fb9695e5SSatish Balay   } else if (format == PETSC_VIEWER_ASCII_MATLAB) {
309d2507d54SMatthew Knepley     Mat aij;
310d5f3da31SBarry Smith     if (A->factortype && bs>1) {
31170d5e725SHong Zhang       ierr = PetscPrintf(PETSC_COMM_SELF,"Warning: matrix is factored with bs>1. MatView() with PETSC_VIEWER_ASCII_MATLAB is not supported and ignored!\n");CHKERRQ(ierr);
31270d5e725SHong Zhang       PetscFunctionReturn(0);
31370d5e725SHong Zhang     }
314c9f458caSMatthew Knepley     ierr = MatConvert(A,MATSEQAIJ,MAT_INITIAL_MATRIX,&aij);CHKERRQ(ierr);
315c9f458caSMatthew Knepley     ierr = MatView(aij,viewer);CHKERRQ(ierr);
3166bf464f9SBarry Smith     ierr = MatDestroy(&aij);CHKERRQ(ierr);
317fb9695e5SSatish Balay   } else if (format == PETSC_VIEWER_ASCII_COMMON) {
318d00279f6SBarry Smith     ierr = PetscViewerASCIIUseTabs(viewer,PETSC_FALSE);CHKERRQ(ierr);
31949b5e25fSSatish Balay     for (i=0; i<a->mbs; i++) {
32049b5e25fSSatish Balay       for (j=0; j<bs; j++) {
32177431f27SBarry Smith         ierr = PetscViewerASCIIPrintf(viewer,"row %D:",i*bs+j);CHKERRQ(ierr);
32249b5e25fSSatish Balay         for (k=a->i[i]; k<a->i[i+1]; k++) {
32349b5e25fSSatish Balay           for (l=0; l<bs; l++) {
32449b5e25fSSatish Balay #if defined(PETSC_USE_COMPLEX)
32549b5e25fSSatish Balay             if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) > 0.0 && PetscRealPart(a->a[bs2*k + l*bs + j]) != 0.0) {
32657622a8eSBarry Smith               ierr = PetscViewerASCIIPrintf(viewer," (%D, %g + %g i) ",bs*a->j[k]+l,
32757622a8eSBarry Smith                                             (double)PetscRealPart(a->a[bs2*k + l*bs + j]),(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));CHKERRQ(ierr);
32849b5e25fSSatish Balay             } else if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) < 0.0 && PetscRealPart(a->a[bs2*k + l*bs + j]) != 0.0) {
32957622a8eSBarry Smith               ierr = PetscViewerASCIIPrintf(viewer," (%D, %g - %g i) ",bs*a->j[k]+l,
33057622a8eSBarry Smith                                             (double)PetscRealPart(a->a[bs2*k + l*bs + j]),-(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));CHKERRQ(ierr);
33149b5e25fSSatish Balay             } else if (PetscRealPart(a->a[bs2*k + l*bs + j]) != 0.0) {
33257622a8eSBarry Smith               ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)PetscRealPart(a->a[bs2*k + l*bs + j]));CHKERRQ(ierr);
33349b5e25fSSatish Balay             }
33449b5e25fSSatish Balay #else
33549b5e25fSSatish Balay             if (a->a[bs2*k + l*bs + j] != 0.0) {
33657622a8eSBarry Smith               ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)a->a[bs2*k + l*bs + j]);CHKERRQ(ierr);
33749b5e25fSSatish Balay             }
33849b5e25fSSatish Balay #endif
33949b5e25fSSatish Balay           }
34049b5e25fSSatish Balay         }
341b0a32e0cSBarry Smith         ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr);
34249b5e25fSSatish Balay       }
34349b5e25fSSatish Balay     }
344d00279f6SBarry Smith     ierr = PetscViewerASCIIUseTabs(viewer,PETSC_TRUE);CHKERRQ(ierr);
345c1490034SHong Zhang   } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) {
346c1490034SHong Zhang     PetscFunctionReturn(0);
34749b5e25fSSatish Balay   } else {
348d00279f6SBarry Smith     ierr = PetscViewerASCIIUseTabs(viewer,PETSC_FALSE);CHKERRQ(ierr);
3492c990fa1SHong Zhang     if (A->factortype) { /* for factored matrix */
3502c990fa1SHong Zhang       if (bs>1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"matrix is factored with bs>1. Not implemented yet");
3512c990fa1SHong Zhang 
352121deb67SSatish Balay       diag=a->diag;
353121deb67SSatish Balay       for (i=0; i<a->mbs; i++) { /* for row block i */
3542c990fa1SHong Zhang         ierr = PetscViewerASCIIPrintf(viewer,"row %D:",i);CHKERRQ(ierr);
3552c990fa1SHong Zhang         /* diagonal entry */
3562c990fa1SHong Zhang #if defined(PETSC_USE_COMPLEX)
3572c990fa1SHong Zhang         if (PetscImaginaryPart(a->a[diag[i]]) > 0.0) {
35857622a8eSBarry Smith           ierr = PetscViewerASCIIPrintf(viewer," (%D, %g + %g i) ",a->j[diag[i]],(double)PetscRealPart(1.0/a->a[diag[i]]),(double)PetscImaginaryPart(1.0/a->a[diag[i]]));CHKERRQ(ierr);
3592c990fa1SHong Zhang         } else if (PetscImaginaryPart(a->a[diag[i]]) < 0.0) {
36057622a8eSBarry Smith           ierr = PetscViewerASCIIPrintf(viewer," (%D, %g - %g i) ",a->j[diag[i]],(double)PetscRealPart(1.0/a->a[diag[i]]),-(double)PetscImaginaryPart(1.0/a->a[diag[i]]));CHKERRQ(ierr);
3612c990fa1SHong Zhang         } else {
36257622a8eSBarry Smith           ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",a->j[diag[i]],(double)PetscRealPart(1.0/a->a[diag[i]]));CHKERRQ(ierr);
3632c990fa1SHong Zhang         }
3642c990fa1SHong Zhang #else
3656712e2f1SBarry Smith         ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",a->j[diag[i]],(double)(1.0/a->a[diag[i]]));CHKERRQ(ierr);
3662c990fa1SHong Zhang #endif
3672c990fa1SHong Zhang         /* off-diagonal entries */
3682c990fa1SHong Zhang         for (k=a->i[i]; k<a->i[i+1]-1; k++) {
3692c990fa1SHong Zhang #if defined(PETSC_USE_COMPLEX)
370ca0704adSBarry Smith           if (PetscImaginaryPart(a->a[k]) > 0.0) {
37157622a8eSBarry Smith             ierr = PetscViewerASCIIPrintf(viewer," (%D, %g + %g i) ",bs*a->j[k],(double)PetscRealPart(a->a[k]),(double)PetscImaginaryPart(a->a[k]));CHKERRQ(ierr);
372ca0704adSBarry Smith           } else if (PetscImaginaryPart(a->a[k]) < 0.0) {
37357622a8eSBarry Smith             ierr = PetscViewerASCIIPrintf(viewer," (%D, %g - %g i) ",bs*a->j[k],(double)PetscRealPart(a->a[k]),-(double)PetscImaginaryPart(a->a[k]));CHKERRQ(ierr);
3742c990fa1SHong Zhang           } else {
37557622a8eSBarry Smith             ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k],(double)PetscRealPart(a->a[k]));CHKERRQ(ierr);
3762c990fa1SHong Zhang           }
3772c990fa1SHong Zhang #else
37857622a8eSBarry Smith           ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",a->j[k],(double)a->a[k]);CHKERRQ(ierr);
3792c990fa1SHong Zhang #endif
3802c990fa1SHong Zhang         }
3812c990fa1SHong Zhang         ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr);
3822c990fa1SHong Zhang       }
3832c990fa1SHong Zhang 
3842c990fa1SHong Zhang     } else { /* for non-factored matrix */
3850c74a584SJed Brown       for (i=0; i<a->mbs; i++) { /* for row block i */
3860c74a584SJed Brown         for (j=0; j<bs; j++) {   /* for row bs*i + j */
38777431f27SBarry Smith           ierr = PetscViewerASCIIPrintf(viewer,"row %D:",i*bs+j);CHKERRQ(ierr);
3880c74a584SJed Brown           for (k=a->i[i]; k<a->i[i+1]; k++) { /* for column block */
3890c74a584SJed Brown             for (l=0; l<bs; l++) {            /* for column */
39049b5e25fSSatish Balay #if defined(PETSC_USE_COMPLEX)
39149b5e25fSSatish Balay               if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) > 0.0) {
39257622a8eSBarry Smith                 ierr = PetscViewerASCIIPrintf(viewer," (%D, %g + %g i) ",bs*a->j[k]+l,
39357622a8eSBarry Smith                                               (double)PetscRealPart(a->a[bs2*k + l*bs + j]),(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));CHKERRQ(ierr);
39449b5e25fSSatish Balay               } else if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) < 0.0) {
39557622a8eSBarry Smith                 ierr = PetscViewerASCIIPrintf(viewer," (%D, %g - %g i) ",bs*a->j[k]+l,
39657622a8eSBarry Smith                                               (double)PetscRealPart(a->a[bs2*k + l*bs + j]),-(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));CHKERRQ(ierr);
39749b5e25fSSatish Balay               } else {
39857622a8eSBarry Smith                 ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)PetscRealPart(a->a[bs2*k + l*bs + j]));CHKERRQ(ierr);
39949b5e25fSSatish Balay               }
40049b5e25fSSatish Balay #else
40157622a8eSBarry Smith               ierr = PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)a->a[bs2*k + l*bs + j]);CHKERRQ(ierr);
40249b5e25fSSatish Balay #endif
40349b5e25fSSatish Balay             }
40449b5e25fSSatish Balay           }
405b0a32e0cSBarry Smith           ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr);
40649b5e25fSSatish Balay         }
40749b5e25fSSatish Balay       }
4082c990fa1SHong Zhang     }
409d00279f6SBarry Smith     ierr = PetscViewerASCIIUseTabs(viewer,PETSC_TRUE);CHKERRQ(ierr);
41049b5e25fSSatish Balay   }
411b0a32e0cSBarry Smith   ierr = PetscViewerFlush(viewer);CHKERRQ(ierr);
41249b5e25fSSatish Balay   PetscFunctionReturn(0);
41349b5e25fSSatish Balay }
41449b5e25fSSatish Balay 
4159804daf3SBarry Smith #include <petscdraw.h>
4164a2ae208SSatish Balay #undef __FUNCT__
4174a2ae208SSatish Balay #define __FUNCT__ "MatView_SeqSBAIJ_Draw_Zoom"
4186849ba73SBarry Smith static PetscErrorCode MatView_SeqSBAIJ_Draw_Zoom(PetscDraw draw,void *Aa)
41949b5e25fSSatish Balay {
42049b5e25fSSatish Balay   Mat            A = (Mat) Aa;
42149b5e25fSSatish Balay   Mat_SeqSBAIJ   *a=(Mat_SeqSBAIJ*)A->data;
4226849ba73SBarry Smith   PetscErrorCode ierr;
423d0f46423SBarry Smith   PetscInt       row,i,j,k,l,mbs=a->mbs,color,bs=A->rmap->bs,bs2=a->bs2;
42413f74950SBarry Smith   PetscMPIInt    rank;
42549b5e25fSSatish Balay   PetscReal      xl,yl,xr,yr,x_l,x_r,y_l,y_r;
42649b5e25fSSatish Balay   MatScalar      *aa;
42749b5e25fSSatish Balay   MPI_Comm       comm;
428b0a32e0cSBarry Smith   PetscViewer    viewer;
42949b5e25fSSatish Balay 
43049b5e25fSSatish Balay   PetscFunctionBegin;
43149b5e25fSSatish Balay   /*
43249b5e25fSSatish Balay     This is nasty. If this is called from an originally parallel matrix
43349b5e25fSSatish Balay     then all processes call this,but only the first has the matrix so the
43449b5e25fSSatish Balay     rest should return immediately.
43549b5e25fSSatish Balay   */
43649b5e25fSSatish Balay   ierr = PetscObjectGetComm((PetscObject)draw,&comm);CHKERRQ(ierr);
43749b5e25fSSatish Balay   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
43849b5e25fSSatish Balay   if (rank) PetscFunctionReturn(0);
43949b5e25fSSatish Balay 
44049b5e25fSSatish Balay   ierr = PetscObjectQuery((PetscObject)A,"Zoomviewer",(PetscObject*)&viewer);CHKERRQ(ierr);
44149b5e25fSSatish Balay 
442b0a32e0cSBarry Smith   ierr = PetscDrawGetCoordinates(draw,&xl,&yl,&xr,&yr);CHKERRQ(ierr);
443b0a32e0cSBarry Smith   PetscDrawString(draw, .3*(xl+xr), .3*(yl+yr), PETSC_DRAW_BLACK, "symmetric");
44449b5e25fSSatish Balay 
44549b5e25fSSatish Balay   /* loop over matrix elements drawing boxes */
446b0a32e0cSBarry Smith   color = PETSC_DRAW_BLUE;
44749b5e25fSSatish Balay   for (i=0,row=0; i<mbs; i++,row+=bs) {
44849b5e25fSSatish Balay     for (j=a->i[i]; j<a->i[i+1]; j++) {
449d0f46423SBarry Smith       y_l = A->rmap->N - row - 1.0; y_r = y_l + 1.0;
45049b5e25fSSatish Balay       x_l = a->j[j]*bs; x_r = x_l + 1.0;
45149b5e25fSSatish Balay       aa  = a->a + j*bs2;
45249b5e25fSSatish Balay       for (k=0; k<bs; k++) {
45349b5e25fSSatish Balay         for (l=0; l<bs; l++) {
45449b5e25fSSatish Balay           if (PetscRealPart(*aa++) >=  0.) continue;
455b0a32e0cSBarry Smith           ierr = PetscDrawRectangle(draw,x_l+k,y_l-l,x_r+k,y_r-l,color,color,color,color);CHKERRQ(ierr);
45649b5e25fSSatish Balay         }
45749b5e25fSSatish Balay       }
45849b5e25fSSatish Balay     }
45949b5e25fSSatish Balay   }
460b0a32e0cSBarry Smith   color = PETSC_DRAW_CYAN;
46149b5e25fSSatish Balay   for (i=0,row=0; i<mbs; i++,row+=bs) {
46249b5e25fSSatish Balay     for (j=a->i[i]; j<a->i[i+1]; j++) {
463d0f46423SBarry Smith       y_l = A->rmap->N - row - 1.0; y_r = y_l + 1.0;
46449b5e25fSSatish Balay       x_l = a->j[j]*bs; x_r = x_l + 1.0;
46549b5e25fSSatish Balay       aa = a->a + j*bs2;
46649b5e25fSSatish Balay       for (k=0; k<bs; k++) {
46749b5e25fSSatish Balay         for (l=0; l<bs; l++) {
46849b5e25fSSatish Balay           if (PetscRealPart(*aa++) != 0.) continue;
469b0a32e0cSBarry Smith           ierr = PetscDrawRectangle(draw,x_l+k,y_l-l,x_r+k,y_r-l,color,color,color,color);CHKERRQ(ierr);
47049b5e25fSSatish Balay         }
47149b5e25fSSatish Balay       }
47249b5e25fSSatish Balay     }
47349b5e25fSSatish Balay   }
47449b5e25fSSatish Balay 
475b0a32e0cSBarry Smith   color = PETSC_DRAW_RED;
47649b5e25fSSatish Balay   for (i=0,row=0; i<mbs; i++,row+=bs) {
47749b5e25fSSatish Balay     for (j=a->i[i]; j<a->i[i+1]; j++) {
478d0f46423SBarry Smith       y_l = A->rmap->N - row - 1.0; y_r = y_l + 1.0;
47949b5e25fSSatish Balay       x_l = a->j[j]*bs; x_r = x_l + 1.0;
48049b5e25fSSatish Balay       aa = a->a + j*bs2;
48149b5e25fSSatish Balay       for (k=0; k<bs; k++) {
48249b5e25fSSatish Balay         for (l=0; l<bs; l++) {
48349b5e25fSSatish Balay           if (PetscRealPart(*aa++) <= 0.) continue;
484b0a32e0cSBarry Smith           ierr = PetscDrawRectangle(draw,x_l+k,y_l-l,x_r+k,y_r-l,color,color,color,color);CHKERRQ(ierr);
48549b5e25fSSatish Balay         }
48649b5e25fSSatish Balay       }
48749b5e25fSSatish Balay     }
48849b5e25fSSatish Balay   }
48949b5e25fSSatish Balay   PetscFunctionReturn(0);
49049b5e25fSSatish Balay }
49149b5e25fSSatish Balay 
4924a2ae208SSatish Balay #undef __FUNCT__
4934a2ae208SSatish Balay #define __FUNCT__ "MatView_SeqSBAIJ_Draw"
4946849ba73SBarry Smith static PetscErrorCode MatView_SeqSBAIJ_Draw(Mat A,PetscViewer viewer)
49549b5e25fSSatish Balay {
496dfbe8321SBarry Smith   PetscErrorCode ierr;
49749b5e25fSSatish Balay   PetscReal      xl,yl,xr,yr,w,h;
498b0a32e0cSBarry Smith   PetscDraw      draw;
499ace3abfcSBarry Smith   PetscBool      isnull;
50049b5e25fSSatish Balay 
50149b5e25fSSatish Balay   PetscFunctionBegin;
502b0a32e0cSBarry Smith   ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr);
503b0a32e0cSBarry Smith   ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0);
50449b5e25fSSatish Balay 
50549b5e25fSSatish Balay   ierr = PetscObjectCompose((PetscObject)A,"Zoomviewer",(PetscObject)viewer);CHKERRQ(ierr);
506d0f46423SBarry Smith   xr   = A->rmap->N; yr = A->rmap->N; h = yr/10.0; w = xr/10.0;
50749b5e25fSSatish Balay   xr  += w;    yr += h;  xl = -w;     yl = -h;
508b0a32e0cSBarry Smith   ierr = PetscDrawSetCoordinates(draw,xl,yl,xr,yr);CHKERRQ(ierr);
509b0a32e0cSBarry Smith   ierr = PetscDrawZoom(draw,MatView_SeqSBAIJ_Draw_Zoom,A);CHKERRQ(ierr);
5100298fd71SBarry Smith   ierr = PetscObjectCompose((PetscObject)A,"Zoomviewer",NULL);CHKERRQ(ierr);
51149b5e25fSSatish Balay   PetscFunctionReturn(0);
51249b5e25fSSatish Balay }
51349b5e25fSSatish Balay 
5144a2ae208SSatish Balay #undef __FUNCT__
5154a2ae208SSatish Balay #define __FUNCT__ "MatView_SeqSBAIJ"
516dfbe8321SBarry Smith PetscErrorCode MatView_SeqSBAIJ(Mat A,PetscViewer viewer)
51749b5e25fSSatish Balay {
518dfbe8321SBarry Smith   PetscErrorCode ierr;
519ace3abfcSBarry Smith   PetscBool      iascii,isdraw;
52008917f38SBarry Smith   FILE           *file = 0;
52149b5e25fSSatish Balay 
52249b5e25fSSatish Balay   PetscFunctionBegin;
523251f4c67SDmitry Karpeev   ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&iascii);CHKERRQ(ierr);
524251f4c67SDmitry Karpeev   ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERDRAW,&isdraw);CHKERRQ(ierr);
52532077d6dSBarry Smith   if (iascii) {
52649b5e25fSSatish Balay     ierr = MatView_SeqSBAIJ_ASCII(A,viewer);CHKERRQ(ierr);
52749b5e25fSSatish Balay   } else if (isdraw) {
52849b5e25fSSatish Balay     ierr = MatView_SeqSBAIJ_Draw(A,viewer);CHKERRQ(ierr);
52949b5e25fSSatish Balay   } else {
530a5e6ed63SBarry Smith     Mat B;
531ceb03754SKris Buschelman     ierr = MatConvert(A,MATSEQAIJ,MAT_INITIAL_MATRIX,&B);CHKERRQ(ierr);
532a5e6ed63SBarry Smith     ierr = MatView(B,viewer);CHKERRQ(ierr);
5336bf464f9SBarry Smith     ierr = MatDestroy(&B);CHKERRQ(ierr);
53408917f38SBarry Smith     ierr = PetscViewerBinaryGetInfoPointer(viewer,&file);CHKERRQ(ierr);
53508917f38SBarry Smith     if (file) {
53608917f38SBarry Smith       fprintf(file,"-matload_block_size %d\n",(int)A->rmap->bs);
53708917f38SBarry Smith     }
53849b5e25fSSatish Balay   }
53949b5e25fSSatish Balay   PetscFunctionReturn(0);
54049b5e25fSSatish Balay }
54149b5e25fSSatish Balay 
54249b5e25fSSatish Balay 
5434a2ae208SSatish Balay #undef __FUNCT__
5444a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_SeqSBAIJ"
54513f74950SBarry Smith PetscErrorCode MatGetValues_SeqSBAIJ(Mat A,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],PetscScalar v[])
54649b5e25fSSatish Balay {
547045c9aa0SHong Zhang   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
54813f74950SBarry Smith   PetscInt     *rp,k,low,high,t,row,nrow,i,col,l,*aj = a->j;
54913f74950SBarry Smith   PetscInt     *ai = a->i,*ailen = a->ilen;
550d0f46423SBarry Smith   PetscInt     brow,bcol,ridx,cidx,bs=A->rmap->bs,bs2=a->bs2;
55197e567efSBarry Smith   MatScalar    *ap,*aa = a->a;
55249b5e25fSSatish Balay 
55349b5e25fSSatish Balay   PetscFunctionBegin;
55449b5e25fSSatish Balay   for (k=0; k<m; k++) { /* loop over rows */
55549b5e25fSSatish Balay     row = im[k]; brow = row/bs;
556e32f2f54SBarry Smith     if (row < 0) {v += n; continue;} /* SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",row); */
557e32f2f54SBarry Smith     if (row >= A->rmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",row,A->rmap->N-1);
55849b5e25fSSatish Balay     rp   = aj + ai[brow]; ap = aa + bs2*ai[brow];
55949b5e25fSSatish Balay     nrow = ailen[brow];
56049b5e25fSSatish Balay     for (l=0; l<n; l++) { /* loop over columns */
561e32f2f54SBarry Smith       if (in[l] < 0) {v++; continue;} /* SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",in[l]); */
562e32f2f54SBarry Smith       if (in[l] >= A->cmap->n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[l],A->cmap->n-1);
56349b5e25fSSatish Balay       col  = in[l];
56449b5e25fSSatish Balay       bcol = col/bs;
56549b5e25fSSatish Balay       cidx = col%bs;
56649b5e25fSSatish Balay       ridx = row%bs;
56749b5e25fSSatish Balay       high = nrow;
56849b5e25fSSatish Balay       low  = 0; /* assume unsorted */
56949b5e25fSSatish Balay       while (high-low > 5) {
57049b5e25fSSatish Balay         t = (low+high)/2;
57149b5e25fSSatish Balay         if (rp[t] > bcol) high = t;
57249b5e25fSSatish Balay         else              low  = t;
57349b5e25fSSatish Balay       }
57449b5e25fSSatish Balay       for (i=low; i<high; i++) {
57549b5e25fSSatish Balay         if (rp[i] > bcol) break;
57649b5e25fSSatish Balay         if (rp[i] == bcol) {
57749b5e25fSSatish Balay           *v++ = ap[bs2*i+bs*cidx+ridx];
57849b5e25fSSatish Balay           goto finished;
57949b5e25fSSatish Balay         }
58049b5e25fSSatish Balay       }
58197e567efSBarry Smith       *v++ = 0.0;
58249b5e25fSSatish Balay finished:;
58349b5e25fSSatish Balay     }
58449b5e25fSSatish Balay   }
58549b5e25fSSatish Balay   PetscFunctionReturn(0);
58649b5e25fSSatish Balay }
58749b5e25fSSatish Balay 
58849b5e25fSSatish Balay 
5894a2ae208SSatish Balay #undef __FUNCT__
5904a2ae208SSatish Balay #define __FUNCT__ "MatSetValuesBlocked_SeqSBAIJ"
59113f74950SBarry Smith PetscErrorCode MatSetValuesBlocked_SeqSBAIJ(Mat A,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode is)
59249b5e25fSSatish Balay {
5930880e062SHong Zhang   Mat_SeqSBAIJ      *a = (Mat_SeqSBAIJ*)A->data;
5946849ba73SBarry Smith   PetscErrorCode    ierr;
595e2ee6c50SBarry Smith   PetscInt          *rp,k,low,high,t,ii,jj,row,nrow,i,col,l,rmax,N,lastcol = -1;
59613f74950SBarry Smith   PetscInt          *imax      =a->imax,*ai=a->i,*ailen=a->ilen;
597d0f46423SBarry Smith   PetscInt          *aj        =a->j,nonew=a->nonew,bs2=a->bs2,bs=A->rmap->bs,stepval;
598ace3abfcSBarry Smith   PetscBool         roworiented=a->roworiented;
599dd6ea824SBarry Smith   const PetscScalar *value     = v;
600f15d580aSBarry Smith   MatScalar         *ap,*aa = a->a,*bap;
6010880e062SHong Zhang 
60249b5e25fSSatish Balay   PetscFunctionBegin;
60326fbe8dcSKarl Rupp   if (roworiented) stepval = (n-1)*bs;
60426fbe8dcSKarl Rupp   else stepval = (m-1)*bs;
60526fbe8dcSKarl Rupp 
6060880e062SHong Zhang   for (k=0; k<m; k++) { /* loop over added rows */
6070880e062SHong Zhang     row = im[k];
6080880e062SHong Zhang     if (row < 0) continue;
6092515c552SBarry Smith #if defined(PETSC_USE_DEBUG)
610e32f2f54SBarry Smith     if (row >= a->mbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",row,a->mbs-1);
6110880e062SHong Zhang #endif
6120880e062SHong Zhang     rp   = aj + ai[row];
6130880e062SHong Zhang     ap   = aa + bs2*ai[row];
6140880e062SHong Zhang     rmax = imax[row];
6150880e062SHong Zhang     nrow = ailen[row];
6160880e062SHong Zhang     low  = 0;
617818f2c47SBarry Smith     high = nrow;
6180880e062SHong Zhang     for (l=0; l<n; l++) { /* loop over added columns */
6190880e062SHong Zhang       if (in[l] < 0) continue;
6200880e062SHong Zhang       col = in[l];
6212515c552SBarry Smith #if defined(PETSC_USE_DEBUG)
622e32f2f54SBarry Smith       if (col >= a->nbs) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",col,a->nbs-1);
623b1823623SSatish Balay #endif
624b98bf0e1SJed Brown       if (col < row) {
62526fbe8dcSKarl Rupp         if (a->ignore_ltriangular) continue; /* ignore lower triangular block */
62626fbe8dcSKarl Rupp         else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"Lower triangular value cannot be set for sbaij format. Ignoring these values, run with -mat_ignore_lower_triangular or call MatSetOption(mat,MAT_IGNORE_LOWER_TRIANGULAR,PETSC_TRUE)");
627b98bf0e1SJed Brown       }
62826fbe8dcSKarl Rupp       if (roworiented) value = v + k*(stepval+bs)*bs + l*bs;
62926fbe8dcSKarl Rupp       else value = v + l*(stepval+bs)*bs + k*bs;
63026fbe8dcSKarl Rupp 
63126fbe8dcSKarl Rupp       if (col <= lastcol) low = 0;
63226fbe8dcSKarl Rupp       else high = nrow;
63326fbe8dcSKarl Rupp 
634e2ee6c50SBarry Smith       lastcol = col;
6350880e062SHong Zhang       while (high-low > 7) {
6360880e062SHong Zhang         t = (low+high)/2;
6370880e062SHong Zhang         if (rp[t] > col) high = t;
6380880e062SHong Zhang         else             low  = t;
6390880e062SHong Zhang       }
6400880e062SHong Zhang       for (i=low; i<high; i++) {
6410880e062SHong Zhang         if (rp[i] > col) break;
6420880e062SHong Zhang         if (rp[i] == col) {
6430880e062SHong Zhang           bap = ap +  bs2*i;
6440880e062SHong Zhang           if (roworiented) {
6450880e062SHong Zhang             if (is == ADD_VALUES) {
6460880e062SHong Zhang               for (ii=0; ii<bs; ii++,value+=stepval) {
6470880e062SHong Zhang                 for (jj=ii; jj<bs2; jj+=bs) {
6480880e062SHong Zhang                   bap[jj] += *value++;
6490880e062SHong Zhang                 }
6500880e062SHong Zhang               }
6510880e062SHong Zhang             } else {
6520880e062SHong Zhang               for (ii=0; ii<bs; ii++,value+=stepval) {
6530880e062SHong Zhang                 for (jj=ii; jj<bs2; jj+=bs) {
6540880e062SHong Zhang                   bap[jj] = *value++;
6550880e062SHong Zhang                 }
6560880e062SHong Zhang                }
6570880e062SHong Zhang             }
6580880e062SHong Zhang           } else {
6590880e062SHong Zhang             if (is == ADD_VALUES) {
6600880e062SHong Zhang               for (ii=0; ii<bs; ii++,value+=stepval) {
6610880e062SHong Zhang                 for (jj=0; jj<bs; jj++) {
6620880e062SHong Zhang                   *bap++ += *value++;
6630880e062SHong Zhang                 }
6640880e062SHong Zhang               }
6650880e062SHong Zhang             } else {
6660880e062SHong Zhang               for (ii=0; ii<bs; ii++,value+=stepval) {
6670880e062SHong Zhang                 for (jj=0; jj<bs; jj++) {
6680880e062SHong Zhang                   *bap++  = *value++;
6690880e062SHong Zhang                 }
6700880e062SHong Zhang               }
6710880e062SHong Zhang             }
6720880e062SHong Zhang           }
6730880e062SHong Zhang           goto noinsert2;
6740880e062SHong Zhang         }
6750880e062SHong Zhang       }
6760880e062SHong Zhang       if (nonew == 1) goto noinsert2;
677e32f2f54SBarry Smith       if (nonew == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col);
678fef13f97SBarry Smith       MatSeqXAIJReallocateAIJ(A,a->mbs,bs2,nrow,row,col,rmax,aa,ai,aj,rp,ap,imax,nonew,MatScalar);
679c03d1d03SSatish Balay       N = nrow++ - 1; high++;
6800880e062SHong Zhang       /* shift up all the later entries in this row */
6810880e062SHong Zhang       for (ii=N; ii>=i; ii--) {
6820880e062SHong Zhang         rp[ii+1] = rp[ii];
6830880e062SHong Zhang         ierr     = PetscMemcpy(ap+bs2*(ii+1),ap+bs2*(ii),bs2*sizeof(MatScalar));CHKERRQ(ierr);
6840880e062SHong Zhang       }
6850880e062SHong Zhang       if (N >= i) {
6860880e062SHong Zhang         ierr = PetscMemzero(ap+bs2*i,bs2*sizeof(MatScalar));CHKERRQ(ierr);
6870880e062SHong Zhang       }
6880880e062SHong Zhang       rp[i] = col;
6890880e062SHong Zhang       bap   = ap +  bs2*i;
6900880e062SHong Zhang       if (roworiented) {
6910880e062SHong Zhang         for (ii=0; ii<bs; ii++,value+=stepval) {
6920880e062SHong Zhang           for (jj=ii; jj<bs2; jj+=bs) {
6930880e062SHong Zhang             bap[jj] = *value++;
6940880e062SHong Zhang           }
6950880e062SHong Zhang         }
6960880e062SHong Zhang       } else {
6970880e062SHong Zhang         for (ii=0; ii<bs; ii++,value+=stepval) {
6980880e062SHong Zhang           for (jj=0; jj<bs; jj++) {
6990880e062SHong Zhang             *bap++ = *value++;
7000880e062SHong Zhang           }
7010880e062SHong Zhang         }
7020880e062SHong Zhang        }
7030880e062SHong Zhang     noinsert2:;
7040880e062SHong Zhang       low = i;
7050880e062SHong Zhang     }
7060880e062SHong Zhang     ailen[row] = nrow;
7070880e062SHong Zhang   }
7080880e062SHong Zhang   PetscFunctionReturn(0);
70949b5e25fSSatish Balay }
71049b5e25fSSatish Balay 
71164831d72SBarry Smith /*
71264831d72SBarry Smith     This is not yet used
71364831d72SBarry Smith */
7144a2ae208SSatish Balay #undef __FUNCT__
7154108e4d5SBarry Smith #define __FUNCT__ "MatAssemblyEnd_SeqSBAIJ_SeqAIJ_Inode"
7164108e4d5SBarry Smith PetscErrorCode MatAssemblyEnd_SeqSBAIJ_SeqAIJ_Inode(Mat A)
7170def2e27SBarry Smith {
7180def2e27SBarry Smith   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
7190def2e27SBarry Smith   PetscErrorCode ierr;
7200def2e27SBarry Smith   const PetscInt *ai = a->i, *aj = a->j,*cols;
7210def2e27SBarry Smith   PetscInt       i   = 0,j,blk_size,m = A->rmap->n,node_count = 0,nzx,nzy,*ns,row,nz,cnt,cnt2,*counts;
722ace3abfcSBarry Smith   PetscBool      flag;
7230def2e27SBarry Smith 
7240def2e27SBarry Smith   PetscFunctionBegin;
725785e854fSJed Brown   ierr = PetscMalloc1(m,&ns);CHKERRQ(ierr);
7260def2e27SBarry Smith   while (i < m) {
7270def2e27SBarry Smith     nzx = ai[i+1] - ai[i];       /* Number of nonzeros */
7280def2e27SBarry Smith     /* Limits the number of elements in a node to 'a->inode.limit' */
7290def2e27SBarry Smith     for (j=i+1,blk_size=1; j<m && blk_size <a->inode.limit; ++j,++blk_size) {
7300def2e27SBarry Smith       nzy = ai[j+1] - ai[j];
7310def2e27SBarry Smith       if (nzy != (nzx - j + i)) break;
7320def2e27SBarry Smith       ierr = PetscMemcmp(aj + ai[i] + j - i,aj + ai[j],nzy*sizeof(PetscInt),&flag);CHKERRQ(ierr);
7330def2e27SBarry Smith       if (!flag) break;
7340def2e27SBarry Smith     }
7350def2e27SBarry Smith     ns[node_count++] = blk_size;
73626fbe8dcSKarl Rupp 
7370def2e27SBarry Smith     i = j;
7380def2e27SBarry Smith   }
7390def2e27SBarry Smith   if (!a->inode.size && m && node_count > .9*m) {
7400def2e27SBarry Smith     ierr = PetscFree(ns);CHKERRQ(ierr);
7410def2e27SBarry Smith     ierr = PetscInfo2(A,"Found %D nodes out of %D rows. Not using Inode routines\n",node_count,m);CHKERRQ(ierr);
7420def2e27SBarry Smith   } else {
7430def2e27SBarry Smith     a->inode.node_count = node_count;
74426fbe8dcSKarl Rupp 
745785e854fSJed Brown     ierr = PetscMalloc1(node_count,&a->inode.size);CHKERRQ(ierr);
7463bb1ff40SBarry Smith     ierr = PetscLogObjectMemory((PetscObject)A,node_count*sizeof(PetscInt));CHKERRQ(ierr);
74722d28d08SBarry Smith     ierr = PetscMemcpy(a->inode.size,ns,node_count*sizeof(PetscInt));CHKERRQ(ierr);
7480def2e27SBarry Smith     ierr = PetscFree(ns);CHKERRQ(ierr);
7490def2e27SBarry Smith     ierr = PetscInfo3(A,"Found %D nodes of %D. Limit used: %D. Using Inode routines\n",node_count,m,a->inode.limit);CHKERRQ(ierr);
7500def2e27SBarry Smith 
7510def2e27SBarry Smith     /* count collections of adjacent columns in each inode */
7520def2e27SBarry Smith     row = 0;
7530def2e27SBarry Smith     cnt = 0;
7540def2e27SBarry Smith     for (i=0; i<node_count; i++) {
7550def2e27SBarry Smith       cols = aj + ai[row] + a->inode.size[i];
7560def2e27SBarry Smith       nz   = ai[row+1] - ai[row] - a->inode.size[i];
7570def2e27SBarry Smith       for (j=1; j<nz; j++) {
75826fbe8dcSKarl Rupp         if (cols[j] != cols[j-1]+1) cnt++;
7590def2e27SBarry Smith       }
7600def2e27SBarry Smith       cnt++;
7610def2e27SBarry Smith       row += a->inode.size[i];
7620def2e27SBarry Smith     }
763785e854fSJed Brown     ierr = PetscMalloc1(2*cnt,&counts);CHKERRQ(ierr);
7640def2e27SBarry Smith     cnt  = 0;
7650def2e27SBarry Smith     row  = 0;
7660def2e27SBarry Smith     for (i=0; i<node_count; i++) {
7670def2e27SBarry Smith       cols = aj + ai[row] + a->inode.size[i];
7680def2e27SBarry Smith       counts[2*cnt] = cols[0];
7690def2e27SBarry Smith       nz   = ai[row+1] - ai[row] - a->inode.size[i];
7700def2e27SBarry Smith       cnt2 = 1;
7710def2e27SBarry Smith       for (j=1; j<nz; j++) {
7720def2e27SBarry Smith         if (cols[j] != cols[j-1]+1) {
7730def2e27SBarry Smith           counts[2*(cnt++)+1] = cnt2;
7740def2e27SBarry Smith           counts[2*cnt]       = cols[j];
7750def2e27SBarry Smith           cnt2 = 1;
7760def2e27SBarry Smith         } else cnt2++;
7770def2e27SBarry Smith       }
7780def2e27SBarry Smith       counts[2*(cnt++)+1] = cnt2;
7790def2e27SBarry Smith       row += a->inode.size[i];
7800def2e27SBarry Smith     }
78122d28d08SBarry Smith     ierr = PetscIntView(2*cnt,counts,0);CHKERRQ(ierr);
7820def2e27SBarry Smith   }
78338702af4SBarry Smith   PetscFunctionReturn(0);
78438702af4SBarry Smith }
78538702af4SBarry Smith 
78638702af4SBarry Smith #undef __FUNCT__
7874a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_SeqSBAIJ"
788dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_SeqSBAIJ(Mat A,MatAssemblyType mode)
78949b5e25fSSatish Balay {
79049b5e25fSSatish Balay   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
7916849ba73SBarry Smith   PetscErrorCode ierr;
79213f74950SBarry Smith   PetscInt       fshift = 0,i,j,*ai = a->i,*aj = a->j,*imax = a->imax;
793d0f46423SBarry Smith   PetscInt       m      = A->rmap->N,*ip,N,*ailen = a->ilen;
79413f74950SBarry Smith   PetscInt       mbs    = a->mbs,bs2 = a->bs2,rmax = 0;
79549b5e25fSSatish Balay   MatScalar      *aa    = a->a,*ap;
79649b5e25fSSatish Balay 
79749b5e25fSSatish Balay   PetscFunctionBegin;
79849b5e25fSSatish Balay   if (mode == MAT_FLUSH_ASSEMBLY) PetscFunctionReturn(0);
79949b5e25fSSatish Balay 
80049b5e25fSSatish Balay   if (m) rmax = ailen[0];
80149b5e25fSSatish Balay   for (i=1; i<mbs; i++) {
80249b5e25fSSatish Balay     /* move each row back by the amount of empty slots (fshift) before it*/
80349b5e25fSSatish Balay     fshift += imax[i-1] - ailen[i-1];
80449b5e25fSSatish Balay     rmax    = PetscMax(rmax,ailen[i]);
80549b5e25fSSatish Balay     if (fshift) {
80649b5e25fSSatish Balay       ip = aj + ai[i]; ap = aa + bs2*ai[i];
80749b5e25fSSatish Balay       N  = ailen[i];
80849b5e25fSSatish Balay       for (j=0; j<N; j++) {
80949b5e25fSSatish Balay         ip[j-fshift] = ip[j];
81049b5e25fSSatish Balay         ierr         = PetscMemcpy(ap+(j-fshift)*bs2,ap+j*bs2,bs2*sizeof(MatScalar));CHKERRQ(ierr);
81149b5e25fSSatish Balay       }
81249b5e25fSSatish Balay     }
81349b5e25fSSatish Balay     ai[i] = ai[i-1] + ailen[i-1];
81449b5e25fSSatish Balay   }
81549b5e25fSSatish Balay   if (mbs) {
81649b5e25fSSatish Balay     fshift += imax[mbs-1] - ailen[mbs-1];
81749b5e25fSSatish Balay     ai[mbs] = ai[mbs-1] + ailen[mbs-1];
81849b5e25fSSatish Balay   }
81949b5e25fSSatish Balay   /* reset ilen and imax for each row */
82049b5e25fSSatish Balay   for (i=0; i<mbs; i++) {
82149b5e25fSSatish Balay     ailen[i] = imax[i] = ai[i+1] - ai[i];
82249b5e25fSSatish Balay   }
8236c6c5352SBarry Smith   a->nz = ai[mbs];
82449b5e25fSSatish Balay 
825b424e231SHong Zhang   /* diagonals may have moved, reset it */
826b424e231SHong Zhang   if (a->diag) {
8272ed38d0bSJed Brown     ierr = PetscMemcpy(a->diag,ai,mbs*sizeof(PetscInt));CHKERRQ(ierr);
82849b5e25fSSatish Balay   }
82926fbe8dcSKarl Rupp   if (fshift && a->nounused == -1) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_PLIB, "Unused space detected in matrix: %D X %D block size %D, %D unneeded", m, A->cmap->n, A->rmap->bs, fshift*bs2);
83026fbe8dcSKarl Rupp 
831d0f46423SBarry Smith   ierr = PetscInfo5(A,"Matrix size: %D X %D, block size %D; storage space: %D unneeded, %D used\n",m,A->rmap->N,A->rmap->bs,fshift*bs2,a->nz*bs2);CHKERRQ(ierr);
832ae15b995SBarry Smith   ierr = PetscInfo1(A,"Number of mallocs during MatSetValues is %D\n",a->reallocs);CHKERRQ(ierr);
833ae15b995SBarry Smith   ierr = PetscInfo1(A,"Most nonzeros blocks in any row is %D\n",rmax);CHKERRQ(ierr);
83426fbe8dcSKarl Rupp 
8358e58a170SBarry Smith   A->info.mallocs    += a->reallocs;
83649b5e25fSSatish Balay   a->reallocs         = 0;
83749b5e25fSSatish Balay   A->info.nz_unneeded = (PetscReal)fshift*bs2;
838061b2667SBarry Smith   a->idiagvalid       = PETSC_FALSE;
8394dcd73b1SHong Zhang   a->rmax             = rmax;
84038702af4SBarry Smith 
84138702af4SBarry Smith   if (A->cmap->n < 65536 && A->cmap->bs == 1) {
84244e1c64aSLisandro Dalcin     if (a->jshort && a->free_jshort) {
84317803ae8SHong Zhang       /* when matrix data structure is changed, previous jshort must be replaced */
84417803ae8SHong Zhang       ierr = PetscFree(a->jshort);CHKERRQ(ierr);
84517803ae8SHong Zhang     }
846785e854fSJed Brown     ierr = PetscMalloc1(a->i[A->rmap->n],&a->jshort);CHKERRQ(ierr);
8473bb1ff40SBarry Smith     ierr = PetscLogObjectMemory((PetscObject)A,a->i[A->rmap->n]*sizeof(unsigned short));CHKERRQ(ierr);
84838702af4SBarry Smith     for (i=0; i<a->i[A->rmap->n]; i++) a->jshort[i] = a->j[i];
84938702af4SBarry Smith     A->ops->mult   = MatMult_SeqSBAIJ_1_ushort;
85041f059aeSBarry Smith     A->ops->sor    = MatSOR_SeqSBAIJ_ushort;
8514da8f245SBarry Smith     a->free_jshort = PETSC_TRUE;
85238702af4SBarry Smith   }
85349b5e25fSSatish Balay   PetscFunctionReturn(0);
85449b5e25fSSatish Balay }
85549b5e25fSSatish Balay 
85649b5e25fSSatish Balay /*
85749b5e25fSSatish Balay    This function returns an array of flags which indicate the locations of contiguous
85849b5e25fSSatish Balay    blocks that should be zeroed. for eg: if bs = 3  and is = [0,1,2,3,5,6,7,8,9]
85949b5e25fSSatish Balay    then the resulting sizes = [3,1,1,3,1] correspondig to sets [(0,1,2),(3),(5),(6,7,8),(9)]
86049b5e25fSSatish Balay    Assume: sizes should be long enough to hold all the values.
86149b5e25fSSatish Balay */
8624a2ae208SSatish Balay #undef __FUNCT__
8634a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_SeqSBAIJ_Check_Blocks"
86413f74950SBarry Smith PetscErrorCode MatZeroRows_SeqSBAIJ_Check_Blocks(PetscInt idx[],PetscInt n,PetscInt bs,PetscInt sizes[], PetscInt *bs_max)
86549b5e25fSSatish Balay {
86613f74950SBarry Smith   PetscInt  i,j,k,row;
867ace3abfcSBarry Smith   PetscBool flg;
86849b5e25fSSatish Balay 
86949b5e25fSSatish Balay   PetscFunctionBegin;
87049b5e25fSSatish Balay   for (i=0,j=0; i<n; j++) {
87149b5e25fSSatish Balay     row = idx[i];
87249b5e25fSSatish Balay     if (row%bs!=0) { /* Not the begining of a block */
87349b5e25fSSatish Balay       sizes[j] = 1;
87449b5e25fSSatish Balay       i++;
87549b5e25fSSatish Balay     } else if (i+bs > n) { /* Beginning of a block, but complete block doesn't exist (at idx end) */
87649b5e25fSSatish Balay       sizes[j] = 1;         /* Also makes sure atleast 'bs' values exist for next else */
87749b5e25fSSatish Balay       i++;
87849b5e25fSSatish Balay     } else { /* Begining of the block, so check if the complete block exists */
87949b5e25fSSatish Balay       flg = PETSC_TRUE;
88049b5e25fSSatish Balay       for (k=1; k<bs; k++) {
88149b5e25fSSatish Balay         if (row+k != idx[i+k]) { /* break in the block */
88249b5e25fSSatish Balay           flg = PETSC_FALSE;
88349b5e25fSSatish Balay           break;
88449b5e25fSSatish Balay         }
88549b5e25fSSatish Balay       }
886abc0a331SBarry Smith       if (flg) { /* No break in the bs */
88749b5e25fSSatish Balay         sizes[j] = bs;
88849b5e25fSSatish Balay         i       += bs;
88949b5e25fSSatish Balay       } else {
89049b5e25fSSatish Balay         sizes[j] = 1;
89149b5e25fSSatish Balay         i++;
89249b5e25fSSatish Balay       }
89349b5e25fSSatish Balay     }
89449b5e25fSSatish Balay   }
89549b5e25fSSatish Balay   *bs_max = j;
89649b5e25fSSatish Balay   PetscFunctionReturn(0);
89749b5e25fSSatish Balay }
89849b5e25fSSatish Balay 
89949b5e25fSSatish Balay 
90049b5e25fSSatish Balay /* Only add/insert a(i,j) with i<=j (blocks).
90149b5e25fSSatish Balay    Any a(i,j) with i>j input by user is ingored.
90249b5e25fSSatish Balay */
90349b5e25fSSatish Balay 
9044a2ae208SSatish Balay #undef __FUNCT__
9054a2ae208SSatish Balay #define __FUNCT__ "MatSetValues_SeqSBAIJ"
90613f74950SBarry Smith PetscErrorCode MatSetValues_SeqSBAIJ(Mat A,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode is)
90749b5e25fSSatish Balay {
90849b5e25fSSatish Balay   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
9096849ba73SBarry Smith   PetscErrorCode ierr;
910e2ee6c50SBarry Smith   PetscInt       *rp,k,low,high,t,ii,row,nrow,i,col,l,rmax,N,lastcol = -1;
91113f74950SBarry Smith   PetscInt       *imax=a->imax,*ai=a->i,*ailen=a->ilen,roworiented=a->roworiented;
912d0f46423SBarry Smith   PetscInt       *aj  =a->j,nonew=a->nonew,bs=A->rmap->bs,brow,bcol;
91313f74950SBarry Smith   PetscInt       ridx,cidx,bs2=a->bs2;
91449b5e25fSSatish Balay   MatScalar      *ap,value,*aa=a->a,*bap;
91549b5e25fSSatish Balay 
91649b5e25fSSatish Balay   PetscFunctionBegin;
91749b5e25fSSatish Balay   for (k=0; k<m; k++) { /* loop over added rows */
91849b5e25fSSatish Balay     row  = im[k];       /* row number */
91949b5e25fSSatish Balay     brow = row/bs;      /* block row number */
92049b5e25fSSatish Balay     if (row < 0) continue;
9212515c552SBarry Smith #if defined(PETSC_USE_DEBUG)
922e32f2f54SBarry Smith     if (row >= A->rmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",row,A->rmap->N-1);
92349b5e25fSSatish Balay #endif
92449b5e25fSSatish Balay     rp   = aj + ai[brow]; /*ptr to beginning of column value of the row block*/
92549b5e25fSSatish Balay     ap   = aa + bs2*ai[brow]; /*ptr to beginning of element value of the row block*/
92649b5e25fSSatish Balay     rmax = imax[brow];  /* maximum space allocated for this row */
92749b5e25fSSatish Balay     nrow = ailen[brow]; /* actual length of this row */
92849b5e25fSSatish Balay     low  = 0;
92949b5e25fSSatish Balay 
93049b5e25fSSatish Balay     for (l=0; l<n; l++) { /* loop over added columns */
93149b5e25fSSatish Balay       if (in[l] < 0) continue;
9322515c552SBarry Smith #if defined(PETSC_USE_DEBUG)
933e32f2f54SBarry Smith       if (in[l] >= A->rmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[l],A->rmap->N-1);
93449b5e25fSSatish Balay #endif
93549b5e25fSSatish Balay       col  = in[l];
93649b5e25fSSatish Balay       bcol = col/bs;              /* block col number */
93749b5e25fSSatish Balay 
938941593c8SHong Zhang       if (brow > bcol) {
93926fbe8dcSKarl Rupp         if (a->ignore_ltriangular) continue; /* ignore lower triangular values */
94026fbe8dcSKarl Rupp         else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"Lower triangular value cannot be set for sbaij format. Ignoring these values, run with -mat_ignore_lower_triangular or call MatSetOption(mat,MAT_IGNORE_LOWER_TRIANGULAR,PETSC_TRUE)");
941941593c8SHong Zhang       }
942f4989cb3SHong Zhang 
94349b5e25fSSatish Balay       ridx = row % bs; cidx = col % bs; /*row and col index inside the block */
9448549e402SHong Zhang       if ((brow==bcol && ridx<=cidx) || (brow<bcol)) {
94549b5e25fSSatish Balay         /* element value a(k,l) */
94626fbe8dcSKarl Rupp         if (roworiented) value = v[l + k*n];
94726fbe8dcSKarl Rupp         else value = v[k + l*m];
94849b5e25fSSatish Balay 
94949b5e25fSSatish Balay         /* move pointer bap to a(k,l) quickly and add/insert value */
95026fbe8dcSKarl Rupp         if (col <= lastcol) low = 0;
95126fbe8dcSKarl Rupp         high = nrow;
952e2ee6c50SBarry Smith         lastcol = col;
95349b5e25fSSatish Balay         while (high-low > 7) {
95449b5e25fSSatish Balay           t = (low+high)/2;
95549b5e25fSSatish Balay           if (rp[t] > bcol) high = t;
95649b5e25fSSatish Balay           else              low  = t;
95749b5e25fSSatish Balay         }
95849b5e25fSSatish Balay         for (i=low; i<high; i++) {
95949b5e25fSSatish Balay           if (rp[i] > bcol) break;
96049b5e25fSSatish Balay           if (rp[i] == bcol) {
96149b5e25fSSatish Balay             bap = ap +  bs2*i + bs*cidx + ridx;
96249b5e25fSSatish Balay             if (is == ADD_VALUES) *bap += value;
96349b5e25fSSatish Balay             else                  *bap  = value;
9648549e402SHong Zhang             /* for diag block, add/insert its symmetric element a(cidx,ridx) */
9658549e402SHong Zhang             if (brow == bcol && ridx < cidx) {
9668549e402SHong Zhang               bap = ap +  bs2*i + bs*ridx + cidx;
9678549e402SHong Zhang               if (is == ADD_VALUES) *bap += value;
9688549e402SHong Zhang               else                  *bap  = value;
9698549e402SHong Zhang             }
97049b5e25fSSatish Balay             goto noinsert1;
97149b5e25fSSatish Balay           }
97249b5e25fSSatish Balay         }
97349b5e25fSSatish Balay 
97449b5e25fSSatish Balay         if (nonew == 1) goto noinsert1;
975e32f2f54SBarry Smith         if (nonew == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col);
976fef13f97SBarry Smith         MatSeqXAIJReallocateAIJ(A,a->mbs,bs2,nrow,brow,bcol,rmax,aa,ai,aj,rp,ap,imax,nonew,MatScalar);
97749b5e25fSSatish Balay 
978c03d1d03SSatish Balay         N = nrow++ - 1; high++;
97949b5e25fSSatish Balay         /* shift up all the later entries in this row */
98049b5e25fSSatish Balay         for (ii=N; ii>=i; ii--) {
98149b5e25fSSatish Balay           rp[ii+1] = rp[ii];
98249b5e25fSSatish Balay           ierr     = PetscMemcpy(ap+bs2*(ii+1),ap+bs2*(ii),bs2*sizeof(MatScalar));CHKERRQ(ierr);
98349b5e25fSSatish Balay         }
98449b5e25fSSatish Balay         if (N>=i) {
98549b5e25fSSatish Balay           ierr = PetscMemzero(ap+bs2*i,bs2*sizeof(MatScalar));CHKERRQ(ierr);
98649b5e25fSSatish Balay         }
98749b5e25fSSatish Balay         rp[i]                      = bcol;
98849b5e25fSSatish Balay         ap[bs2*i + bs*cidx + ridx] = value;
989e56f5c9eSBarry Smith         A->nonzerostate++;
99049b5e25fSSatish Balay noinsert1:;
99149b5e25fSSatish Balay         low = i;
9928549e402SHong Zhang       }
99349b5e25fSSatish Balay     }   /* end of loop over added columns */
99449b5e25fSSatish Balay     ailen[brow] = nrow;
99549b5e25fSSatish Balay   }   /* end of loop over added rows */
99649b5e25fSSatish Balay   PetscFunctionReturn(0);
99749b5e25fSSatish Balay }
99849b5e25fSSatish Balay 
9994a2ae208SSatish Balay #undef __FUNCT__
10004d101231SSatish Balay #define __FUNCT__ "MatICCFactor_SeqSBAIJ"
10010481f469SBarry Smith PetscErrorCode MatICCFactor_SeqSBAIJ(Mat inA,IS row,const MatFactorInfo *info)
100249b5e25fSSatish Balay {
10034ccecd49SHong Zhang   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)inA->data;
100449b5e25fSSatish Balay   Mat            outA;
1005dfbe8321SBarry Smith   PetscErrorCode ierr;
1006ace3abfcSBarry Smith   PetscBool      row_identity;
100749b5e25fSSatish Balay 
100849b5e25fSSatish Balay   PetscFunctionBegin;
1009e32f2f54SBarry Smith   if (info->levels != 0) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Only levels=0 is supported for in-place icc");
1010c84f5b01SHong Zhang   ierr = ISIdentity(row,&row_identity);CHKERRQ(ierr);
1011e32f2f54SBarry Smith   if (!row_identity) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Matrix reordering is not supported");
1012e32f2f54SBarry Smith   if (inA->rmap->bs != 1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Matrix block size %D is not supported",inA->rmap->bs); /* Need to replace MatCholeskyFactorSymbolic_SeqSBAIJ_MSR()! */
1013c84f5b01SHong Zhang 
101449b5e25fSSatish Balay   outA            = inA;
1015d5f3da31SBarry Smith   inA->factortype = MAT_FACTOR_ICC;
101649b5e25fSSatish Balay 
10171a3463dfSHong Zhang   ierr = MatMarkDiagonal_SeqSBAIJ(inA);CHKERRQ(ierr);
1018d595f711SHong Zhang   ierr = MatSeqSBAIJSetNumericFactorization_inplace(inA,row_identity);CHKERRQ(ierr);
101949b5e25fSSatish Balay 
1020c3122656SLisandro Dalcin   ierr   = PetscObjectReference((PetscObject)row);CHKERRQ(ierr);
10216bf464f9SBarry Smith   ierr   = ISDestroy(&a->row);CHKERRQ(ierr);
1022c84f5b01SHong Zhang   a->row = row;
1023c3122656SLisandro Dalcin   ierr   = PetscObjectReference((PetscObject)row);CHKERRQ(ierr);
10246bf464f9SBarry Smith   ierr   = ISDestroy(&a->col);CHKERRQ(ierr);
1025c84f5b01SHong Zhang   a->col = row;
1026c84f5b01SHong Zhang 
1027c84f5b01SHong Zhang   /* Create the invert permutation so that it can be used in MatCholeskyFactorNumeric() */
1028c84f5b01SHong Zhang   if (a->icol) {ierr = ISInvertPermutation(row,PETSC_DECIDE, &a->icol);CHKERRQ(ierr);}
10293bb1ff40SBarry Smith   ierr = PetscLogObjectParent((PetscObject)inA,(PetscObject)a->icol);CHKERRQ(ierr);
103049b5e25fSSatish Balay 
103149b5e25fSSatish Balay   if (!a->solve_work) {
1032*854ce69bSBarry Smith     ierr = PetscMalloc1(inA->rmap->N+inA->rmap->bs,&a->solve_work);CHKERRQ(ierr);
10333bb1ff40SBarry Smith     ierr = PetscLogObjectMemory((PetscObject)inA,(inA->rmap->N+inA->rmap->bs)*sizeof(PetscScalar));CHKERRQ(ierr);
103449b5e25fSSatish Balay   }
103549b5e25fSSatish Balay 
1036719d5645SBarry Smith   ierr = MatCholeskyFactorNumeric(outA,inA,info);CHKERRQ(ierr);
103749b5e25fSSatish Balay   PetscFunctionReturn(0);
103849b5e25fSSatish Balay }
1039950f1e5bSHong Zhang 
10404a2ae208SSatish Balay #undef __FUNCT__
10414a2ae208SSatish Balay #define __FUNCT__ "MatSeqSBAIJSetColumnIndices_SeqSBAIJ"
10427087cfbeSBarry Smith PetscErrorCode  MatSeqSBAIJSetColumnIndices_SeqSBAIJ(Mat mat,PetscInt *indices)
104349b5e25fSSatish Balay {
1044045c9aa0SHong Zhang   Mat_SeqSBAIJ   *baij = (Mat_SeqSBAIJ*)mat->data;
104513f74950SBarry Smith   PetscInt       i,nz,n;
10467827cd58SJed Brown   PetscErrorCode ierr;
104749b5e25fSSatish Balay 
104849b5e25fSSatish Balay   PetscFunctionBegin;
10496c6c5352SBarry Smith   nz = baij->maxnz;
1050d0f46423SBarry Smith   n  = mat->cmap->n;
105126fbe8dcSKarl Rupp   for (i=0; i<nz; i++) baij->j[i] = indices[i];
105226fbe8dcSKarl Rupp 
10536c6c5352SBarry Smith   baij->nz = nz;
105426fbe8dcSKarl Rupp   for (i=0; i<n; i++) baij->ilen[i] = baij->imax[i];
105526fbe8dcSKarl Rupp 
10567827cd58SJed Brown   ierr = MatSetOption(mat,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr);
105749b5e25fSSatish Balay   PetscFunctionReturn(0);
105849b5e25fSSatish Balay }
105949b5e25fSSatish Balay 
10604a2ae208SSatish Balay #undef __FUNCT__
10614a2ae208SSatish Balay #define __FUNCT__ "MatSeqSBAIJSetColumnIndices"
106249b5e25fSSatish Balay /*@
106319585528SSatish Balay   MatSeqSBAIJSetColumnIndices - Set the column indices for all the rows
106449b5e25fSSatish Balay   in the matrix.
106549b5e25fSSatish Balay 
106649b5e25fSSatish Balay   Input Parameters:
106719585528SSatish Balay   +  mat     - the SeqSBAIJ matrix
106849b5e25fSSatish Balay   -  indices - the column indices
106949b5e25fSSatish Balay 
107049b5e25fSSatish Balay   Level: advanced
107149b5e25fSSatish Balay 
107249b5e25fSSatish Balay   Notes:
107349b5e25fSSatish Balay   This can be called if you have precomputed the nonzero structure of the
107449b5e25fSSatish Balay   matrix and want to provide it to the matrix object to improve the performance
107549b5e25fSSatish Balay   of the MatSetValues() operation.
107649b5e25fSSatish Balay 
107749b5e25fSSatish Balay   You MUST have set the correct numbers of nonzeros per row in the call to
1078d1be2dadSMatthew Knepley   MatCreateSeqSBAIJ(), and the columns indices MUST be sorted.
107949b5e25fSSatish Balay 
1080ab9f2c04SSatish Balay   MUST be called before any calls to MatSetValues()
108149b5e25fSSatish Balay 
1082ab9f2c04SSatish Balay   .seealso: MatCreateSeqSBAIJ
108349b5e25fSSatish Balay @*/
10847087cfbeSBarry Smith PetscErrorCode  MatSeqSBAIJSetColumnIndices(Mat mat,PetscInt *indices)
108549b5e25fSSatish Balay {
10864ac538c5SBarry Smith   PetscErrorCode ierr;
108749b5e25fSSatish Balay 
108849b5e25fSSatish Balay   PetscFunctionBegin;
10890700a824SBarry Smith   PetscValidHeaderSpecific(mat,MAT_CLASSID,1);
10904482741eSBarry Smith   PetscValidPointer(indices,2);
10914ac538c5SBarry Smith   ierr = PetscUseMethod(mat,"MatSeqSBAIJSetColumnIndices_C",(Mat,PetscInt*),(mat,indices));CHKERRQ(ierr);
109249b5e25fSSatish Balay   PetscFunctionReturn(0);
109349b5e25fSSatish Balay }
109449b5e25fSSatish Balay 
10954a2ae208SSatish Balay #undef __FUNCT__
10963c896bc6SHong Zhang #define __FUNCT__ "MatCopy_SeqSBAIJ"
10973c896bc6SHong Zhang PetscErrorCode MatCopy_SeqSBAIJ(Mat A,Mat B,MatStructure str)
10983c896bc6SHong Zhang {
10993c896bc6SHong Zhang   PetscErrorCode ierr;
11003c896bc6SHong Zhang 
11013c896bc6SHong Zhang   PetscFunctionBegin;
11023c896bc6SHong Zhang   /* If the two matrices have the same copy implementation, use fast copy. */
11033c896bc6SHong Zhang   if (str == SAME_NONZERO_PATTERN && (A->ops->copy == B->ops->copy)) {
11043c896bc6SHong Zhang     Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
11053c896bc6SHong Zhang     Mat_SeqSBAIJ *b = (Mat_SeqSBAIJ*)B->data;
11063c896bc6SHong Zhang 
1107e7e72b3dSBarry Smith     if (a->i[A->rmap->N] != b->i[B->rmap->N]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_INCOMP,"Number of nonzeros in two matrices are different");
1108d0f46423SBarry Smith     ierr = PetscMemcpy(b->a,a->a,(a->i[A->rmap->N])*sizeof(PetscScalar));CHKERRQ(ierr);
11093c896bc6SHong Zhang   } else {
1110f5edf698SHong Zhang     ierr = MatGetRowUpperTriangular(A);CHKERRQ(ierr);
11113c896bc6SHong Zhang     ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr);
1112f5edf698SHong Zhang     ierr = MatRestoreRowUpperTriangular(A);CHKERRQ(ierr);
11133c896bc6SHong Zhang   }
11143c896bc6SHong Zhang   PetscFunctionReturn(0);
11153c896bc6SHong Zhang }
11163c896bc6SHong Zhang 
11173c896bc6SHong Zhang #undef __FUNCT__
11184994cf47SJed Brown #define __FUNCT__ "MatSetUp_SeqSBAIJ"
11194994cf47SJed Brown PetscErrorCode MatSetUp_SeqSBAIJ(Mat A)
1120273d9f13SBarry Smith {
1121dfbe8321SBarry Smith   PetscErrorCode ierr;
1122273d9f13SBarry Smith 
1123273d9f13SBarry Smith   PetscFunctionBegin;
1124535b19f3SBarry Smith   ierr = MatSeqSBAIJSetPreallocation_SeqSBAIJ(A,A->rmap->bs,PETSC_DEFAULT,0);CHKERRQ(ierr);
1125273d9f13SBarry Smith   PetscFunctionReturn(0);
1126273d9f13SBarry Smith }
1127273d9f13SBarry Smith 
1128a6ece127SHong Zhang #undef __FUNCT__
11298c778c55SBarry Smith #define __FUNCT__ "MatSeqSBAIJGetArray_SeqSBAIJ"
11308c778c55SBarry Smith PetscErrorCode MatSeqSBAIJGetArray_SeqSBAIJ(Mat A,PetscScalar *array[])
1131a6ece127SHong Zhang {
1132a6ece127SHong Zhang   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
11335fd66863SKarl Rupp 
1134a6ece127SHong Zhang   PetscFunctionBegin;
1135a6ece127SHong Zhang   *array = a->a;
1136a6ece127SHong Zhang   PetscFunctionReturn(0);
1137a6ece127SHong Zhang }
1138a6ece127SHong Zhang 
1139a6ece127SHong Zhang #undef __FUNCT__
11408c778c55SBarry Smith #define __FUNCT__ "MatSeqSBAIJRestoreArray_SeqSBAIJ"
11418c778c55SBarry Smith PetscErrorCode MatSeqSBAIJRestoreArray_SeqSBAIJ(Mat A,PetscScalar *array[])
1142a6ece127SHong Zhang {
1143a6ece127SHong Zhang   PetscFunctionBegin;
1144a6ece127SHong Zhang   PetscFunctionReturn(0);
1145a6ece127SHong Zhang }
1146a6ece127SHong Zhang 
114742ee4b1aSHong Zhang #undef __FUNCT__
114852768537SHong Zhang #define __FUNCT__ "MatAXPYGetPreallocation_SeqSBAIJ"
114952768537SHong Zhang PetscErrorCode MatAXPYGetPreallocation_SeqSBAIJ(Mat Y,Mat X,PetscInt *nnz)
115052768537SHong Zhang {
1151b264fe52SHong Zhang   PetscInt       bs = Y->rmap->bs,mbs = Y->rmap->N/bs;
115252768537SHong Zhang   Mat_SeqSBAIJ   *x = (Mat_SeqSBAIJ*)X->data;
115352768537SHong Zhang   Mat_SeqSBAIJ   *y = (Mat_SeqSBAIJ*)Y->data;
1154b264fe52SHong Zhang   PetscErrorCode ierr;
115552768537SHong Zhang 
115652768537SHong Zhang   PetscFunctionBegin;
115752768537SHong Zhang   /* Set the number of nonzeros in the new matrix */
1158b264fe52SHong Zhang   ierr = MatAXPYGetPreallocation_SeqX_private(mbs,x->i,x->j,y->i,y->j,nnz);CHKERRQ(ierr);
115952768537SHong Zhang   PetscFunctionReturn(0);
116052768537SHong Zhang }
116152768537SHong Zhang 
116252768537SHong Zhang #undef __FUNCT__
116342ee4b1aSHong Zhang #define __FUNCT__ "MatAXPY_SeqSBAIJ"
1164f4df32b1SMatthew Knepley PetscErrorCode MatAXPY_SeqSBAIJ(Mat Y,PetscScalar a,Mat X,MatStructure str)
116542ee4b1aSHong Zhang {
116642ee4b1aSHong Zhang   Mat_SeqSBAIJ   *x=(Mat_SeqSBAIJ*)X->data, *y=(Mat_SeqSBAIJ*)Y->data;
1167dfbe8321SBarry Smith   PetscErrorCode ierr;
116831ce2d13SHong Zhang   PetscInt       bs=Y->rmap->bs,bs2=bs*bs;
1169e838b9e7SJed Brown   PetscBLASInt   one = 1;
117042ee4b1aSHong Zhang 
117142ee4b1aSHong Zhang   PetscFunctionBegin;
117242ee4b1aSHong Zhang   if (str == SAME_NONZERO_PATTERN) {
1173f4df32b1SMatthew Knepley     PetscScalar  alpha = a;
1174c5df96a5SBarry Smith     PetscBLASInt bnz;
1175c5df96a5SBarry Smith     ierr = PetscBLASIntCast(x->nz*bs2,&bnz);CHKERRQ(ierr);
11768b83055fSJed Brown     PetscStackCallBLAS("BLASaxpy",BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one));
1177a3fa217bSJose E. Roman     ierr = PetscObjectStateIncrease((PetscObject)Y);CHKERRQ(ierr);
117842ee4b1aSHong Zhang   } else {
117952768537SHong Zhang     Mat      B;
118052768537SHong Zhang     PetscInt *nnz;
118152768537SHong Zhang     if (bs != X->rmap->bs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrices must have same block size");
1182f5edf698SHong Zhang     ierr = MatGetRowUpperTriangular(X);CHKERRQ(ierr);
118352768537SHong Zhang     ierr = MatGetRowUpperTriangular(Y);CHKERRQ(ierr);
118452768537SHong Zhang     ierr = PetscMalloc1(Y->rmap->N,&nnz);CHKERRQ(ierr);
118552768537SHong Zhang     ierr = MatCreate(PetscObjectComm((PetscObject)Y),&B);CHKERRQ(ierr);
118652768537SHong Zhang     ierr = PetscObjectSetName((PetscObject)B,((PetscObject)Y)->name);CHKERRQ(ierr);
118752768537SHong Zhang     ierr = MatSetSizes(B,Y->rmap->n,Y->cmap->n,Y->rmap->N,Y->cmap->N);CHKERRQ(ierr);
118852768537SHong Zhang     ierr = MatSetBlockSizesFromMats(B,Y,Y);CHKERRQ(ierr);
118952768537SHong Zhang     ierr = MatSetType(B,(MatType) ((PetscObject)Y)->type_name);CHKERRQ(ierr);
119052768537SHong Zhang     ierr = MatAXPYGetPreallocation_SeqSBAIJ(Y,X,nnz);CHKERRQ(ierr);
119152768537SHong Zhang     ierr = MatSeqSBAIJSetPreallocation(B,bs,0,nnz);CHKERRQ(ierr);
119252768537SHong Zhang 
119352768537SHong Zhang     ierr = MatAXPY_BasicWithPreallocation(B,Y,a,X,str);CHKERRQ(ierr);
119452768537SHong Zhang 
119552768537SHong Zhang     ierr = MatHeaderReplace(Y,B);CHKERRQ(ierr);
119652768537SHong Zhang     ierr = PetscFree(nnz);CHKERRQ(ierr);
1197f5edf698SHong Zhang     ierr = MatRestoreRowUpperTriangular(X);CHKERRQ(ierr);
119852768537SHong Zhang     ierr = MatRestoreRowUpperTriangular(Y);CHKERRQ(ierr);
119942ee4b1aSHong Zhang   }
120042ee4b1aSHong Zhang   PetscFunctionReturn(0);
120142ee4b1aSHong Zhang }
120242ee4b1aSHong Zhang 
1203efcf0fc3SBarry Smith #undef __FUNCT__
1204efcf0fc3SBarry Smith #define __FUNCT__ "MatIsSymmetric_SeqSBAIJ"
1205ace3abfcSBarry Smith PetscErrorCode MatIsSymmetric_SeqSBAIJ(Mat A,PetscReal tol,PetscBool  *flg)
1206efcf0fc3SBarry Smith {
1207efcf0fc3SBarry Smith   PetscFunctionBegin;
1208efcf0fc3SBarry Smith   *flg = PETSC_TRUE;
1209efcf0fc3SBarry Smith   PetscFunctionReturn(0);
1210efcf0fc3SBarry Smith }
1211efcf0fc3SBarry Smith 
1212efcf0fc3SBarry Smith #undef __FUNCT__
1213efcf0fc3SBarry Smith #define __FUNCT__ "MatIsStructurallySymmetric_SeqSBAIJ"
1214ace3abfcSBarry Smith PetscErrorCode MatIsStructurallySymmetric_SeqSBAIJ(Mat A,PetscBool  *flg)
1215efcf0fc3SBarry Smith {
1216efcf0fc3SBarry Smith   PetscFunctionBegin;
1217efcf0fc3SBarry Smith   *flg = PETSC_TRUE;
1218efcf0fc3SBarry Smith   PetscFunctionReturn(0);
1219efcf0fc3SBarry Smith }
1220efcf0fc3SBarry Smith 
1221efcf0fc3SBarry Smith #undef __FUNCT__
1222efcf0fc3SBarry Smith #define __FUNCT__ "MatIsHermitian_SeqSBAIJ"
1223ace3abfcSBarry Smith PetscErrorCode MatIsHermitian_SeqSBAIJ(Mat A,PetscReal tol,PetscBool  *flg)
1224efcf0fc3SBarry Smith {
1225efcf0fc3SBarry Smith   PetscFunctionBegin;
1226efcf0fc3SBarry Smith   *flg = PETSC_FALSE;
1227efcf0fc3SBarry Smith   PetscFunctionReturn(0);
1228efcf0fc3SBarry Smith }
1229efcf0fc3SBarry Smith 
123099cafbc1SBarry Smith #undef __FUNCT__
123199cafbc1SBarry Smith #define __FUNCT__ "MatRealPart_SeqSBAIJ"
123299cafbc1SBarry Smith PetscErrorCode MatRealPart_SeqSBAIJ(Mat A)
123399cafbc1SBarry Smith {
123499cafbc1SBarry Smith   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
123599cafbc1SBarry Smith   PetscInt     i,nz = a->bs2*a->i[a->mbs];
1236dd6ea824SBarry Smith   MatScalar    *aa = a->a;
123799cafbc1SBarry Smith 
123899cafbc1SBarry Smith   PetscFunctionBegin;
123999cafbc1SBarry Smith   for (i=0; i<nz; i++) aa[i] = PetscRealPart(aa[i]);
124099cafbc1SBarry Smith   PetscFunctionReturn(0);
124199cafbc1SBarry Smith }
124299cafbc1SBarry Smith 
124399cafbc1SBarry Smith #undef __FUNCT__
124499cafbc1SBarry Smith #define __FUNCT__ "MatImaginaryPart_SeqSBAIJ"
124599cafbc1SBarry Smith PetscErrorCode MatImaginaryPart_SeqSBAIJ(Mat A)
124699cafbc1SBarry Smith {
124799cafbc1SBarry Smith   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
124899cafbc1SBarry Smith   PetscInt     i,nz = a->bs2*a->i[a->mbs];
1249dd6ea824SBarry Smith   MatScalar    *aa = a->a;
125099cafbc1SBarry Smith 
125199cafbc1SBarry Smith   PetscFunctionBegin;
125299cafbc1SBarry Smith   for (i=0; i<nz; i++) aa[i] = PetscImaginaryPart(aa[i]);
125399cafbc1SBarry Smith   PetscFunctionReturn(0);
125499cafbc1SBarry Smith }
125599cafbc1SBarry Smith 
12563bededecSBarry Smith #undef __FUNCT__
12573bededecSBarry Smith #define __FUNCT__ "MatZeroRowsColumns_SeqSBAIJ"
12583bededecSBarry Smith PetscErrorCode MatZeroRowsColumns_SeqSBAIJ(Mat A,PetscInt is_n,const PetscInt is_idx[],PetscScalar diag,Vec x, Vec b)
12593bededecSBarry Smith {
12603bededecSBarry Smith   Mat_SeqSBAIJ      *baij=(Mat_SeqSBAIJ*)A->data;
12613bededecSBarry Smith   PetscErrorCode    ierr;
12623bededecSBarry Smith   PetscInt          i,j,k,count;
12633bededecSBarry Smith   PetscInt          bs   =A->rmap->bs,bs2=baij->bs2,row,col;
12643bededecSBarry Smith   PetscScalar       zero = 0.0;
12653bededecSBarry Smith   MatScalar         *aa;
12663bededecSBarry Smith   const PetscScalar *xx;
12673bededecSBarry Smith   PetscScalar       *bb;
126856777dd2SBarry Smith   PetscBool         *zeroed,vecs = PETSC_FALSE;
12693bededecSBarry Smith 
12703bededecSBarry Smith   PetscFunctionBegin;
12713bededecSBarry Smith   /* fix right hand side if needed */
12723bededecSBarry Smith   if (x && b) {
12733bededecSBarry Smith     ierr = VecGetArrayRead(x,&xx);CHKERRQ(ierr);
12743bededecSBarry Smith     ierr = VecGetArray(b,&bb);CHKERRQ(ierr);
127556777dd2SBarry Smith     vecs = PETSC_TRUE;
12763bededecSBarry Smith   }
12773bededecSBarry Smith 
12783bededecSBarry Smith   /* zero the columns */
12791795a4d1SJed Brown   ierr = PetscCalloc1(A->rmap->n,&zeroed);CHKERRQ(ierr);
12803bededecSBarry Smith   for (i=0; i<is_n; i++) {
12813bededecSBarry Smith     if (is_idx[i] < 0 || is_idx[i] >= A->rmap->N) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"row %D out of range",is_idx[i]);
12823bededecSBarry Smith     zeroed[is_idx[i]] = PETSC_TRUE;
12833bededecSBarry Smith   }
128456777dd2SBarry Smith   if (vecs) {
128556777dd2SBarry Smith     for (i=0; i<A->rmap->N; i++) {
128656777dd2SBarry Smith       row = i/bs;
128756777dd2SBarry Smith       for (j=baij->i[row]; j<baij->i[row+1]; j++) {
128856777dd2SBarry Smith         for (k=0; k<bs; k++) {
128956777dd2SBarry Smith           col = bs*baij->j[j] + k;
129056777dd2SBarry Smith           if (col <= i) continue;
129156777dd2SBarry Smith           aa = ((MatScalar*)(baij->a)) + j*bs2 + (i%bs) + bs*k;
129226fbe8dcSKarl Rupp           if (!zeroed[i] && zeroed[col]) bb[i]   -= aa[0]*xx[col];
129326fbe8dcSKarl Rupp           if (zeroed[i] && !zeroed[col]) bb[col] -= aa[0]*xx[i];
129456777dd2SBarry Smith         }
129556777dd2SBarry Smith       }
129656777dd2SBarry Smith     }
129726fbe8dcSKarl Rupp     for (i=0; i<is_n; i++) bb[is_idx[i]] = diag*xx[is_idx[i]];
129856777dd2SBarry Smith   }
129956777dd2SBarry Smith 
13003bededecSBarry Smith   for (i=0; i<A->rmap->N; i++) {
13013bededecSBarry Smith     if (!zeroed[i]) {
13023bededecSBarry Smith       row = i/bs;
13033bededecSBarry Smith       for (j=baij->i[row]; j<baij->i[row+1]; j++) {
13043bededecSBarry Smith         for (k=0; k<bs; k++) {
13053bededecSBarry Smith           col = bs*baij->j[j] + k;
13063bededecSBarry Smith           if (zeroed[col]) {
13073bededecSBarry Smith             aa = ((MatScalar*)(baij->a)) + j*bs2 + (i%bs) + bs*k;
13083bededecSBarry Smith             aa[0] = 0.0;
13093bededecSBarry Smith           }
13103bededecSBarry Smith         }
13113bededecSBarry Smith       }
13123bededecSBarry Smith     }
13133bededecSBarry Smith   }
13143bededecSBarry Smith   ierr = PetscFree(zeroed);CHKERRQ(ierr);
131556777dd2SBarry Smith   if (vecs) {
131656777dd2SBarry Smith     ierr = VecRestoreArrayRead(x,&xx);CHKERRQ(ierr);
131756777dd2SBarry Smith     ierr = VecRestoreArray(b,&bb);CHKERRQ(ierr);
131856777dd2SBarry Smith   }
13193bededecSBarry Smith 
13203bededecSBarry Smith   /* zero the rows */
13213bededecSBarry Smith   for (i=0; i<is_n; i++) {
13223bededecSBarry Smith     row   = is_idx[i];
13233bededecSBarry Smith     count = (baij->i[row/bs +1] - baij->i[row/bs])*bs;
13243bededecSBarry Smith     aa    = ((MatScalar*)(baij->a)) + baij->i[row/bs]*bs2 + (row%bs);
13253bededecSBarry Smith     for (k=0; k<count; k++) {
13263bededecSBarry Smith       aa[0] =  zero;
13273bededecSBarry Smith       aa   += bs;
13283bededecSBarry Smith     }
13293bededecSBarry Smith     if (diag != 0.0) {
13303bededecSBarry Smith       ierr = (*A->ops->setvalues)(A,1,&row,1,&row,&diag,INSERT_VALUES);CHKERRQ(ierr);
13313bededecSBarry Smith     }
13323bededecSBarry Smith   }
13333bededecSBarry Smith   ierr = MatAssemblyEnd_SeqSBAIJ(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
13343bededecSBarry Smith   PetscFunctionReturn(0);
13353bededecSBarry Smith }
13363bededecSBarry Smith 
133749b5e25fSSatish Balay /* -------------------------------------------------------------------*/
13383964eb88SJed Brown static struct _MatOps MatOps_Values = {MatSetValues_SeqSBAIJ,
133949b5e25fSSatish Balay                                        MatGetRow_SeqSBAIJ,
134049b5e25fSSatish Balay                                        MatRestoreRow_SeqSBAIJ,
134149b5e25fSSatish Balay                                        MatMult_SeqSBAIJ_N,
134297304618SKris Buschelman                                /*  4*/ MatMultAdd_SeqSBAIJ_N,
1343431c96f7SBarry Smith                                        MatMult_SeqSBAIJ_N,       /* transpose versions are same as non-transpose versions */
1344e005ede5SBarry Smith                                        MatMultAdd_SeqSBAIJ_N,
1345db4efbfdSBarry Smith                                        0,
134649b5e25fSSatish Balay                                        0,
134749b5e25fSSatish Balay                                        0,
134897304618SKris Buschelman                                /* 10*/ 0,
134949b5e25fSSatish Balay                                        0,
1350c078aec8SLisandro Dalcin                                        MatCholeskyFactor_SeqSBAIJ,
135141f059aeSBarry Smith                                        MatSOR_SeqSBAIJ,
135249b5e25fSSatish Balay                                        MatTranspose_SeqSBAIJ,
135397304618SKris Buschelman                                /* 15*/ MatGetInfo_SeqSBAIJ,
135449b5e25fSSatish Balay                                        MatEqual_SeqSBAIJ,
135549b5e25fSSatish Balay                                        MatGetDiagonal_SeqSBAIJ,
135649b5e25fSSatish Balay                                        MatDiagonalScale_SeqSBAIJ,
135749b5e25fSSatish Balay                                        MatNorm_SeqSBAIJ,
135897304618SKris Buschelman                                /* 20*/ 0,
135949b5e25fSSatish Balay                                        MatAssemblyEnd_SeqSBAIJ,
136049b5e25fSSatish Balay                                        MatSetOption_SeqSBAIJ,
136149b5e25fSSatish Balay                                        MatZeroEntries_SeqSBAIJ,
1362d519adbfSMatthew Knepley                                /* 24*/ 0,
136349b5e25fSSatish Balay                                        0,
136449b5e25fSSatish Balay                                        0,
1365db4efbfdSBarry Smith                                        0,
1366db4efbfdSBarry Smith                                        0,
13674994cf47SJed Brown                                /* 29*/ MatSetUp_SeqSBAIJ,
1368c464158bSHong Zhang                                        0,
1369db4efbfdSBarry Smith                                        0,
13708c778c55SBarry Smith                                        0,
13718c778c55SBarry Smith                                        0,
1372d519adbfSMatthew Knepley                                /* 34*/ MatDuplicate_SeqSBAIJ,
1373719d5645SBarry Smith                                        0,
1374719d5645SBarry Smith                                        0,
137549b5e25fSSatish Balay                                        0,
1376c84f5b01SHong Zhang                                        MatICCFactor_SeqSBAIJ,
1377d519adbfSMatthew Knepley                                /* 39*/ MatAXPY_SeqSBAIJ,
137849b5e25fSSatish Balay                                        MatGetSubMatrices_SeqSBAIJ,
137949b5e25fSSatish Balay                                        MatIncreaseOverlap_SeqSBAIJ,
138049b5e25fSSatish Balay                                        MatGetValues_SeqSBAIJ,
13813c896bc6SHong Zhang                                        MatCopy_SeqSBAIJ,
1382d519adbfSMatthew Knepley                                /* 44*/ 0,
138349b5e25fSSatish Balay                                        MatScale_SeqSBAIJ,
138449b5e25fSSatish Balay                                        0,
138549b5e25fSSatish Balay                                        0,
13863bededecSBarry Smith                                        MatZeroRowsColumns_SeqSBAIJ,
1387f73d5cc4SBarry Smith                                /* 49*/ 0,
138849b5e25fSSatish Balay                                        MatGetRowIJ_SeqSBAIJ,
138949b5e25fSSatish Balay                                        MatRestoreRowIJ_SeqSBAIJ,
139049b5e25fSSatish Balay                                        0,
139149b5e25fSSatish Balay                                        0,
1392d519adbfSMatthew Knepley                                /* 54*/ 0,
139349b5e25fSSatish Balay                                        0,
139449b5e25fSSatish Balay                                        0,
139549b5e25fSSatish Balay                                        0,
139649b5e25fSSatish Balay                                        MatSetValuesBlocked_SeqSBAIJ,
1397d519adbfSMatthew Knepley                                /* 59*/ MatGetSubMatrix_SeqSBAIJ,
139849b5e25fSSatish Balay                                        0,
139949b5e25fSSatish Balay                                        0,
1400357abbc8SBarry Smith                                        0,
1401d959ec07SHong Zhang                                        0,
1402d519adbfSMatthew Knepley                                /* 64*/ 0,
1403d959ec07SHong Zhang                                        0,
1404d959ec07SHong Zhang                                        0,
1405d959ec07SHong Zhang                                        0,
1406d959ec07SHong Zhang                                        0,
1407d519adbfSMatthew Knepley                                /* 69*/ MatGetRowMaxAbs_SeqSBAIJ,
14083e0d88b5SBarry Smith                                        0,
14093e0d88b5SBarry Smith                                        0,
14103e0d88b5SBarry Smith                                        0,
14113e0d88b5SBarry Smith                                        0,
1412d519adbfSMatthew Knepley                                /* 74*/ 0,
14133e0d88b5SBarry Smith                                        0,
14143e0d88b5SBarry Smith                                        0,
14153e0d88b5SBarry Smith                                        0,
14163e0d88b5SBarry Smith                                        0,
1417d519adbfSMatthew Knepley                                /* 79*/ 0,
14183e0d88b5SBarry Smith                                        0,
14193e0d88b5SBarry Smith                                        0,
142097304618SKris Buschelman                                        MatGetInertia_SeqSBAIJ,
14215bba2384SShri Abhyankar                                        MatLoad_SeqSBAIJ,
1422d519adbfSMatthew Knepley                                /* 84*/ MatIsSymmetric_SeqSBAIJ,
1423865e5f61SKris Buschelman                                        MatIsHermitian_SeqSBAIJ,
1424efcf0fc3SBarry Smith                                        MatIsStructurallySymmetric_SeqSBAIJ,
1425865e5f61SKris Buschelman                                        0,
1426865e5f61SKris Buschelman                                        0,
1427d519adbfSMatthew Knepley                                /* 89*/ 0,
1428865e5f61SKris Buschelman                                        0,
1429865e5f61SKris Buschelman                                        0,
1430865e5f61SKris Buschelman                                        0,
1431865e5f61SKris Buschelman                                        0,
1432d519adbfSMatthew Knepley                                /* 94*/ 0,
1433865e5f61SKris Buschelman                                        0,
1434865e5f61SKris Buschelman                                        0,
143599cafbc1SBarry Smith                                        0,
143699cafbc1SBarry Smith                                        0,
1437d519adbfSMatthew Knepley                                /* 99*/ 0,
143899cafbc1SBarry Smith                                        0,
143999cafbc1SBarry Smith                                        0,
144099cafbc1SBarry Smith                                        0,
144199cafbc1SBarry Smith                                        0,
1442d519adbfSMatthew Knepley                                /*104*/ 0,
144399cafbc1SBarry Smith                                        MatRealPart_SeqSBAIJ,
1444f5edf698SHong Zhang                                        MatImaginaryPart_SeqSBAIJ,
1445f5edf698SHong Zhang                                        MatGetRowUpperTriangular_SeqSBAIJ,
14462af78befSBarry Smith                                        MatRestoreRowUpperTriangular_SeqSBAIJ,
1447d519adbfSMatthew Knepley                                /*109*/ 0,
14482af78befSBarry Smith                                        0,
14492af78befSBarry Smith                                        0,
14502af78befSBarry Smith                                        0,
1451547795f9SHong Zhang                                        MatMissingDiagonal_SeqSBAIJ,
1452547795f9SHong Zhang                                /*114*/ 0,
1453547795f9SHong Zhang                                        0,
1454547795f9SHong Zhang                                        0,
1455547795f9SHong Zhang                                        0,
1456547795f9SHong Zhang                                        0,
1457547795f9SHong Zhang                                /*119*/ 0,
1458547795f9SHong Zhang                                        0,
14592f480046SShri Abhyankar                                        0,
14603964eb88SJed Brown                                        0,
14613964eb88SJed Brown                                        0,
14623964eb88SJed Brown                                /*124*/ 0,
14633964eb88SJed Brown                                        0,
14643964eb88SJed Brown                                        0,
14653964eb88SJed Brown                                        0,
14663964eb88SJed Brown                                        0,
14673964eb88SJed Brown                                /*129*/ 0,
14683964eb88SJed Brown                                        0,
14693964eb88SJed Brown                                        0,
14703964eb88SJed Brown                                        0,
14713964eb88SJed Brown                                        0,
14723964eb88SJed Brown                                /*134*/ 0,
14733964eb88SJed Brown                                        0,
14743964eb88SJed Brown                                        0,
14753964eb88SJed Brown                                        0,
14763964eb88SJed Brown                                        0,
14773964eb88SJed Brown                                /*139*/ 0,
1478f9426fe0SMark Adams                                        0,
147959f5e6ceSHong Zhang                                        0,
148059f5e6ceSHong Zhang                                        0,
148159f5e6ceSHong Zhang                                        0,
148259f5e6ceSHong Zhang                                 /*144*/MatCreateMPIMatConcatenateSeqMat_SeqSBAIJ
148399cafbc1SBarry Smith };
1484be1d678aSKris Buschelman 
14854a2ae208SSatish Balay #undef __FUNCT__
14864a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_SeqSBAIJ"
14877087cfbeSBarry Smith PetscErrorCode  MatStoreValues_SeqSBAIJ(Mat mat)
148849b5e25fSSatish Balay {
14894afc71dfSHong Zhang   Mat_SeqSBAIJ   *aij = (Mat_SeqSBAIJ*)mat->data;
1490d0f46423SBarry Smith   PetscInt       nz   = aij->i[mat->rmap->N]*mat->rmap->bs*aij->bs2;
1491dfbe8321SBarry Smith   PetscErrorCode ierr;
149249b5e25fSSatish Balay 
149349b5e25fSSatish Balay   PetscFunctionBegin;
1494e7e72b3dSBarry Smith   if (aij->nonew != 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ORDER,"Must call MatSetOption(A,MAT_NEW_NONZERO_LOCATIONS,PETSC_FALSE);first");
149549b5e25fSSatish Balay 
149649b5e25fSSatish Balay   /* allocate space for values if not already there */
149749b5e25fSSatish Balay   if (!aij->saved_values) {
1498*854ce69bSBarry Smith     ierr = PetscMalloc1(nz+1,&aij->saved_values);CHKERRQ(ierr);
149949b5e25fSSatish Balay   }
150049b5e25fSSatish Balay 
150149b5e25fSSatish Balay   /* copy values over */
150287828ca2SBarry Smith   ierr = PetscMemcpy(aij->saved_values,aij->a,nz*sizeof(PetscScalar));CHKERRQ(ierr);
150349b5e25fSSatish Balay   PetscFunctionReturn(0);
150449b5e25fSSatish Balay }
150549b5e25fSSatish Balay 
15064a2ae208SSatish Balay #undef __FUNCT__
15074a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_SeqSBAIJ"
15087087cfbeSBarry Smith PetscErrorCode  MatRetrieveValues_SeqSBAIJ(Mat mat)
150949b5e25fSSatish Balay {
15104afc71dfSHong Zhang   Mat_SeqSBAIJ   *aij = (Mat_SeqSBAIJ*)mat->data;
15116849ba73SBarry Smith   PetscErrorCode ierr;
1512d0f46423SBarry Smith   PetscInt       nz = aij->i[mat->rmap->N]*mat->rmap->bs*aij->bs2;
151349b5e25fSSatish Balay 
151449b5e25fSSatish Balay   PetscFunctionBegin;
1515e7e72b3dSBarry Smith   if (aij->nonew != 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ORDER,"Must call MatSetOption(A,MAT_NEW_NONZERO_LOCATIONS,PETSC_FALSE);first");
1516e7e72b3dSBarry Smith   if (!aij->saved_values) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ORDER,"Must call MatStoreValues(A);first");
151749b5e25fSSatish Balay 
151849b5e25fSSatish Balay   /* copy values over */
151987828ca2SBarry Smith   ierr = PetscMemcpy(aij->a,aij->saved_values,nz*sizeof(PetscScalar));CHKERRQ(ierr);
152049b5e25fSSatish Balay   PetscFunctionReturn(0);
152149b5e25fSSatish Balay }
152249b5e25fSSatish Balay 
15234a2ae208SSatish Balay #undef __FUNCT__
1524a23d5eceSKris Buschelman #define __FUNCT__ "MatSeqSBAIJSetPreallocation_SeqSBAIJ"
15257087cfbeSBarry Smith PetscErrorCode  MatSeqSBAIJSetPreallocation_SeqSBAIJ(Mat B,PetscInt bs,PetscInt nz,PetscInt *nnz)
152649b5e25fSSatish Balay {
1527c464158bSHong Zhang   Mat_SeqSBAIJ   *b = (Mat_SeqSBAIJ*)B->data;
15286849ba73SBarry Smith   PetscErrorCode ierr;
15294dcd73b1SHong Zhang   PetscInt       i,mbs,nbs,bs2;
15302576faa2SJed Brown   PetscBool      skipallocation = PETSC_FALSE,flg = PETSC_FALSE,realalloc = PETSC_FALSE;
153149b5e25fSSatish Balay 
153249b5e25fSSatish Balay   PetscFunctionBegin;
15332576faa2SJed Brown   if (nz >= 0 || nnz) realalloc = PETSC_TRUE;
1534273d9f13SBarry Smith   B->preallocated = PETSC_TRUE;
1535db4efbfdSBarry Smith 
153633d57670SJed Brown   ierr = MatSetBlockSize(B,PetscAbs(bs));CHKERRQ(ierr);
153726283091SBarry Smith   ierr = PetscLayoutSetUp(B->rmap);CHKERRQ(ierr);
153826283091SBarry Smith   ierr = PetscLayoutSetUp(B->cmap);CHKERRQ(ierr);
1539e02043d6SBarry Smith   ierr = PetscLayoutGetBlockSize(B->rmap,&bs);CHKERRQ(ierr);
1540899cda47SBarry Smith 
1541d0f46423SBarry Smith   mbs = B->rmap->N/bs;
15424dcd73b1SHong Zhang   nbs = B->cmap->n/bs;
154349b5e25fSSatish Balay   bs2 = bs*bs;
154449b5e25fSSatish Balay 
15454dcd73b1SHong Zhang   if (mbs*bs != B->rmap->N || nbs*bs!=B->cmap->n) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Number rows, cols must be divisible by blocksize");
154649b5e25fSSatish Balay 
1547ab93d7beSBarry Smith   if (nz == MAT_SKIP_ALLOCATION) {
1548ab93d7beSBarry Smith     skipallocation = PETSC_TRUE;
1549ab93d7beSBarry Smith     nz             = 0;
1550ab93d7beSBarry Smith   }
1551ab93d7beSBarry Smith 
1552435da068SBarry Smith   if (nz == PETSC_DEFAULT || nz == PETSC_DECIDE) nz = 3;
1553e32f2f54SBarry Smith   if (nz < 0) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"nz cannot be less than 0: value %D",nz);
155449b5e25fSSatish Balay   if (nnz) {
155549b5e25fSSatish Balay     for (i=0; i<mbs; i++) {
1556e32f2f54SBarry Smith       if (nnz[i] < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"nnz cannot be less than 0: local row %D value %D",i,nnz[i]);
1557de64b629SHong Zhang       if (nnz[i] > nbs) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"nnz cannot be greater than block row length: local row %D value %D block rowlength %D",i,nnz[i],nbs);
155849b5e25fSSatish Balay     }
155949b5e25fSSatish Balay   }
156049b5e25fSSatish Balay 
1561db4efbfdSBarry Smith   B->ops->mult             = MatMult_SeqSBAIJ_N;
1562db4efbfdSBarry Smith   B->ops->multadd          = MatMultAdd_SeqSBAIJ_N;
1563db4efbfdSBarry Smith   B->ops->multtranspose    = MatMult_SeqSBAIJ_N;
1564db4efbfdSBarry Smith   B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_N;
156526fbe8dcSKarl Rupp 
15660298fd71SBarry Smith   ierr  = PetscOptionsGetBool(((PetscObject)B)->prefix,"-mat_no_unroll",&flg,NULL);CHKERRQ(ierr);
156749b5e25fSSatish Balay   if (!flg) {
156849b5e25fSSatish Balay     switch (bs) {
156949b5e25fSSatish Balay     case 1:
157049b5e25fSSatish Balay       B->ops->mult             = MatMult_SeqSBAIJ_1;
157149b5e25fSSatish Balay       B->ops->multadd          = MatMultAdd_SeqSBAIJ_1;
1572431c96f7SBarry Smith       B->ops->multtranspose    = MatMult_SeqSBAIJ_1;
1573431c96f7SBarry Smith       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_1;
157449b5e25fSSatish Balay       break;
157549b5e25fSSatish Balay     case 2:
157649b5e25fSSatish Balay       B->ops->mult             = MatMult_SeqSBAIJ_2;
157749b5e25fSSatish Balay       B->ops->multadd          = MatMultAdd_SeqSBAIJ_2;
1578431c96f7SBarry Smith       B->ops->multtranspose    = MatMult_SeqSBAIJ_2;
1579431c96f7SBarry Smith       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_2;
158049b5e25fSSatish Balay       break;
158149b5e25fSSatish Balay     case 3:
158249b5e25fSSatish Balay       B->ops->mult             = MatMult_SeqSBAIJ_3;
158349b5e25fSSatish Balay       B->ops->multadd          = MatMultAdd_SeqSBAIJ_3;
1584431c96f7SBarry Smith       B->ops->multtranspose    = MatMult_SeqSBAIJ_3;
1585431c96f7SBarry Smith       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_3;
158649b5e25fSSatish Balay       break;
158749b5e25fSSatish Balay     case 4:
158849b5e25fSSatish Balay       B->ops->mult             = MatMult_SeqSBAIJ_4;
158949b5e25fSSatish Balay       B->ops->multadd          = MatMultAdd_SeqSBAIJ_4;
1590431c96f7SBarry Smith       B->ops->multtranspose    = MatMult_SeqSBAIJ_4;
1591431c96f7SBarry Smith       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_4;
159249b5e25fSSatish Balay       break;
159349b5e25fSSatish Balay     case 5:
159449b5e25fSSatish Balay       B->ops->mult             = MatMult_SeqSBAIJ_5;
159549b5e25fSSatish Balay       B->ops->multadd          = MatMultAdd_SeqSBAIJ_5;
1596431c96f7SBarry Smith       B->ops->multtranspose    = MatMult_SeqSBAIJ_5;
1597431c96f7SBarry Smith       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_5;
159849b5e25fSSatish Balay       break;
159949b5e25fSSatish Balay     case 6:
160049b5e25fSSatish Balay       B->ops->mult             = MatMult_SeqSBAIJ_6;
160149b5e25fSSatish Balay       B->ops->multadd          = MatMultAdd_SeqSBAIJ_6;
1602431c96f7SBarry Smith       B->ops->multtranspose    = MatMult_SeqSBAIJ_6;
1603431c96f7SBarry Smith       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_6;
160449b5e25fSSatish Balay       break;
160549b5e25fSSatish Balay     case 7:
1606de53e5efSHong Zhang       B->ops->mult             = MatMult_SeqSBAIJ_7;
160749b5e25fSSatish Balay       B->ops->multadd          = MatMultAdd_SeqSBAIJ_7;
1608431c96f7SBarry Smith       B->ops->multtranspose    = MatMult_SeqSBAIJ_7;
1609431c96f7SBarry Smith       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_7;
161049b5e25fSSatish Balay       break;
161149b5e25fSSatish Balay     }
161249b5e25fSSatish Balay   }
161349b5e25fSSatish Balay 
161449b5e25fSSatish Balay   b->mbs = mbs;
16154dcd73b1SHong Zhang   b->nbs = nbs;
1616ab93d7beSBarry Smith   if (!skipallocation) {
16172ee49352SLisandro Dalcin     if (!b->imax) {
1618dcca6d9dSJed Brown       ierr = PetscMalloc2(mbs,&b->imax,mbs,&b->ilen);CHKERRQ(ierr);
161926fbe8dcSKarl Rupp 
1620c760cd28SBarry Smith       b->free_imax_ilen = PETSC_TRUE;
162126fbe8dcSKarl Rupp 
16223bb1ff40SBarry Smith       ierr = PetscLogObjectMemory((PetscObject)B,2*mbs*sizeof(PetscInt));CHKERRQ(ierr);
16232ee49352SLisandro Dalcin     }
162449b5e25fSSatish Balay     if (!nnz) {
1625435da068SBarry Smith       if (nz == PETSC_DEFAULT || nz == PETSC_DECIDE) nz = 5;
162649b5e25fSSatish Balay       else if (nz <= 0) nz = 1;
162726fbe8dcSKarl Rupp       for (i=0; i<mbs; i++) b->imax[i] = nz;
1628153ea458SHong Zhang       nz = nz*mbs; /* total nz */
162949b5e25fSSatish Balay     } else {
163049b5e25fSSatish Balay       nz = 0;
16318cef66ccSHong Zhang       for (i=0; i<mbs; i++) {b->imax[i] = nnz[i]; nz += nnz[i];}
163249b5e25fSSatish Balay     }
16332ee49352SLisandro Dalcin     /* b->ilen will count nonzeros in each block row so far. */
163426fbe8dcSKarl Rupp     for (i=0; i<mbs; i++) b->ilen[i] = 0;
16356c6c5352SBarry Smith     /* nz=(nz+mbs)/2; */ /* total diagonal and superdiagonal nonzero blocks */
163649b5e25fSSatish Balay 
163749b5e25fSSatish Balay     /* allocate the matrix space */
16382ee49352SLisandro Dalcin     ierr = MatSeqXAIJFreeAIJ(B,&b->a,&b->j,&b->i);CHKERRQ(ierr);
1639dcca6d9dSJed Brown     ierr = PetscMalloc3(bs2*nz,&b->a,nz,&b->j,B->rmap->N+1,&b->i);CHKERRQ(ierr);
16403bb1ff40SBarry Smith     ierr = PetscLogObjectMemory((PetscObject)B,(B->rmap->N+1)*sizeof(PetscInt)+nz*(bs2*sizeof(PetscScalar)+sizeof(PetscInt)));CHKERRQ(ierr);
16416c6c5352SBarry Smith     ierr = PetscMemzero(b->a,nz*bs2*sizeof(MatScalar));CHKERRQ(ierr);
164213f74950SBarry Smith     ierr = PetscMemzero(b->j,nz*sizeof(PetscInt));CHKERRQ(ierr);
164326fbe8dcSKarl Rupp 
164449b5e25fSSatish Balay     b->singlemalloc = PETSC_TRUE;
164549b5e25fSSatish Balay 
164649b5e25fSSatish Balay     /* pointer to beginning of each row */
1647e60cf9a0SBarry Smith     b->i[0] = 0;
164826fbe8dcSKarl Rupp     for (i=1; i<mbs+1; i++) b->i[i] = b->i[i-1] + b->imax[i-1];
164926fbe8dcSKarl Rupp 
1650e6b907acSBarry Smith     b->free_a  = PETSC_TRUE;
1651e6b907acSBarry Smith     b->free_ij = PETSC_TRUE;
1652e811da20SHong Zhang   } else {
1653e6b907acSBarry Smith     b->free_a  = PETSC_FALSE;
1654e6b907acSBarry Smith     b->free_ij = PETSC_FALSE;
1655ab93d7beSBarry Smith   }
165649b5e25fSSatish Balay 
1657d0f46423SBarry Smith   B->rmap->bs = bs;
165849b5e25fSSatish Balay   b->bs2      = bs2;
16596c6c5352SBarry Smith   b->nz       = 0;
1660b32cb4a7SJed Brown   b->maxnz    = nz;
1661153ea458SHong Zhang 
166216cdd363SHong Zhang   b->inew    = 0;
166316cdd363SHong Zhang   b->jnew    = 0;
166416cdd363SHong Zhang   b->anew    = 0;
166516cdd363SHong Zhang   b->a2anew  = 0;
16661a3463dfSHong Zhang   b->permute = PETSC_FALSE;
16672576faa2SJed Brown   if (realalloc) {ierr = MatSetOption(B,MAT_NEW_NONZERO_ALLOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr);}
1668c464158bSHong Zhang   PetscFunctionReturn(0);
1669c464158bSHong Zhang }
1670153ea458SHong Zhang 
167138f409ebSLisandro Dalcin #undef __FUNCT__
167238f409ebSLisandro Dalcin #define __FUNCT__ "MatSeqSBAIJSetPreallocationCSR_SeqSBAIJ"
167338f409ebSLisandro Dalcin PetscErrorCode MatSeqSBAIJSetPreallocationCSR_SeqSBAIJ(Mat B,PetscInt bs,const PetscInt ii[],const PetscInt jj[], const PetscScalar V[])
167438f409ebSLisandro Dalcin {
167538f409ebSLisandro Dalcin   PetscInt       i,j,m,nz,nz_max=0,*nnz;
167638f409ebSLisandro Dalcin   PetscScalar    *values=0;
167738f409ebSLisandro Dalcin   PetscBool      roworiented = ((Mat_SeqSBAIJ*)B->data)->roworiented;
167838f409ebSLisandro Dalcin   PetscErrorCode ierr;
167938f409ebSLisandro Dalcin   PetscFunctionBegin;
168038f409ebSLisandro Dalcin   if (bs < 1) SETERRQ1(PetscObjectComm((PetscObject)B),PETSC_ERR_ARG_OUTOFRANGE,"Invalid block size specified, must be positive but it is %D",bs);
168138f409ebSLisandro Dalcin   ierr   = PetscLayoutSetBlockSize(B->rmap,bs);CHKERRQ(ierr);
168238f409ebSLisandro Dalcin   ierr   = PetscLayoutSetBlockSize(B->cmap,bs);CHKERRQ(ierr);
168338f409ebSLisandro Dalcin   ierr   = PetscLayoutSetUp(B->rmap);CHKERRQ(ierr);
168438f409ebSLisandro Dalcin   ierr   = PetscLayoutSetUp(B->cmap);CHKERRQ(ierr);
168538f409ebSLisandro Dalcin   ierr   = PetscLayoutGetBlockSize(B->rmap,&bs);CHKERRQ(ierr);
168638f409ebSLisandro Dalcin   m      = B->rmap->n/bs;
168738f409ebSLisandro Dalcin 
168838f409ebSLisandro Dalcin   if (ii[0]) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"ii[0] must be 0 but it is %D",ii[0]);
1689*854ce69bSBarry Smith   ierr = PetscMalloc1(m+1,&nnz);CHKERRQ(ierr);
169038f409ebSLisandro Dalcin   for (i=0; i<m; i++) {
169138f409ebSLisandro Dalcin     nz = ii[i+1] - ii[i];
169238f409ebSLisandro Dalcin     if (nz < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row %D has a negative number of columns %D",i,nz);
169338f409ebSLisandro Dalcin     nz_max = PetscMax(nz_max,nz);
169438f409ebSLisandro Dalcin     nnz[i] = nz;
169538f409ebSLisandro Dalcin   }
169638f409ebSLisandro Dalcin   ierr = MatSeqSBAIJSetPreallocation(B,bs,0,nnz);CHKERRQ(ierr);
169738f409ebSLisandro Dalcin   ierr = PetscFree(nnz);CHKERRQ(ierr);
169838f409ebSLisandro Dalcin 
169938f409ebSLisandro Dalcin   values = (PetscScalar*)V;
170038f409ebSLisandro Dalcin   if (!values) {
17011795a4d1SJed Brown     ierr = PetscCalloc1(bs*bs*nz_max,&values);CHKERRQ(ierr);
170238f409ebSLisandro Dalcin   }
170338f409ebSLisandro Dalcin   for (i=0; i<m; i++) {
170438f409ebSLisandro Dalcin     PetscInt          ncols  = ii[i+1] - ii[i];
170538f409ebSLisandro Dalcin     const PetscInt    *icols = jj + ii[i];
170638f409ebSLisandro Dalcin     if (!roworiented || bs == 1) {
170738f409ebSLisandro Dalcin       const PetscScalar *svals = values + (V ? (bs*bs*ii[i]) : 0);
170838f409ebSLisandro Dalcin       ierr = MatSetValuesBlocked_SeqSBAIJ(B,1,&i,ncols,icols,svals,INSERT_VALUES);CHKERRQ(ierr);
170938f409ebSLisandro Dalcin     } else {
171038f409ebSLisandro Dalcin       for (j=0; j<ncols; j++) {
171138f409ebSLisandro Dalcin         const PetscScalar *svals = values + (V ? (bs*bs*(ii[i]+j)) : 0);
171238f409ebSLisandro Dalcin         ierr = MatSetValuesBlocked_SeqSBAIJ(B,1,&i,1,&icols[j],svals,INSERT_VALUES);CHKERRQ(ierr);
171338f409ebSLisandro Dalcin       }
171438f409ebSLisandro Dalcin     }
171538f409ebSLisandro Dalcin   }
171638f409ebSLisandro Dalcin   if (!V) { ierr = PetscFree(values);CHKERRQ(ierr); }
171738f409ebSLisandro Dalcin   ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
171838f409ebSLisandro Dalcin   ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
171938f409ebSLisandro Dalcin   ierr = MatSetOption(B,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr);
172038f409ebSLisandro Dalcin   PetscFunctionReturn(0);
172138f409ebSLisandro Dalcin }
172238f409ebSLisandro Dalcin 
1723db4efbfdSBarry Smith /*
1724db4efbfdSBarry Smith    This is used to set the numeric factorization for both Cholesky and ICC symbolic factorization
1725db4efbfdSBarry Smith */
17268b1456e3SHong Zhang #undef __FUNCT__
1727d595f711SHong Zhang #define __FUNCT__ "MatSeqSBAIJSetNumericFactorization_inplace"
1728ace3abfcSBarry Smith PetscErrorCode MatSeqSBAIJSetNumericFactorization_inplace(Mat B,PetscBool natural)
1729db4efbfdSBarry Smith {
1730db4efbfdSBarry Smith   PetscErrorCode ierr;
1731ace3abfcSBarry Smith   PetscBool      flg = PETSC_FALSE;
1732db4efbfdSBarry Smith   PetscInt       bs  = B->rmap->bs;
1733db4efbfdSBarry Smith 
1734db4efbfdSBarry Smith   PetscFunctionBegin;
17350298fd71SBarry Smith   ierr = PetscOptionsGetBool(((PetscObject)B)->prefix,"-mat_no_unroll",&flg,NULL);CHKERRQ(ierr);
1736db4efbfdSBarry Smith   if (flg) bs = 8;
1737db4efbfdSBarry Smith 
1738db4efbfdSBarry Smith   if (!natural) {
1739db4efbfdSBarry Smith     switch (bs) {
1740db4efbfdSBarry Smith     case 1:
1741d595f711SHong Zhang       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_1_inplace;
1742db4efbfdSBarry Smith       break;
1743db4efbfdSBarry Smith     case 2:
1744db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_2;
1745db4efbfdSBarry Smith       break;
1746db4efbfdSBarry Smith     case 3:
1747db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_3;
1748db4efbfdSBarry Smith       break;
1749db4efbfdSBarry Smith     case 4:
1750db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_4;
1751db4efbfdSBarry Smith       break;
1752db4efbfdSBarry Smith     case 5:
1753db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_5;
1754db4efbfdSBarry Smith       break;
1755db4efbfdSBarry Smith     case 6:
1756db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_6;
1757db4efbfdSBarry Smith       break;
1758db4efbfdSBarry Smith     case 7:
1759db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_7;
1760db4efbfdSBarry Smith       break;
1761db4efbfdSBarry Smith     default:
1762db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_N;
1763db4efbfdSBarry Smith       break;
1764db4efbfdSBarry Smith     }
1765db4efbfdSBarry Smith   } else {
1766db4efbfdSBarry Smith     switch (bs) {
1767db4efbfdSBarry Smith     case 1:
1768d595f711SHong Zhang       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_1_NaturalOrdering_inplace;
1769db4efbfdSBarry Smith       break;
1770db4efbfdSBarry Smith     case 2:
1771db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_2_NaturalOrdering;
1772db4efbfdSBarry Smith       break;
1773db4efbfdSBarry Smith     case 3:
1774db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_3_NaturalOrdering;
1775db4efbfdSBarry Smith       break;
1776db4efbfdSBarry Smith     case 4:
1777db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_4_NaturalOrdering;
1778db4efbfdSBarry Smith       break;
1779db4efbfdSBarry Smith     case 5:
1780db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_5_NaturalOrdering;
1781db4efbfdSBarry Smith       break;
1782db4efbfdSBarry Smith     case 6:
1783db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_6_NaturalOrdering;
1784db4efbfdSBarry Smith       break;
1785db4efbfdSBarry Smith     case 7:
1786db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_7_NaturalOrdering;
1787db4efbfdSBarry Smith       break;
1788db4efbfdSBarry Smith     default:
1789db4efbfdSBarry Smith       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_N_NaturalOrdering;
1790db4efbfdSBarry Smith       break;
1791db4efbfdSBarry Smith     }
1792db4efbfdSBarry Smith   }
1793db4efbfdSBarry Smith   PetscFunctionReturn(0);
1794db4efbfdSBarry Smith }
1795db4efbfdSBarry Smith 
17968cc058d9SJed Brown PETSC_EXTERN PetscErrorCode MatConvert_SeqSBAIJ_SeqAIJ(Mat, MatType,MatReuse,Mat*);
17978cc058d9SJed Brown PETSC_EXTERN PetscErrorCode MatConvert_SeqSBAIJ_SeqBAIJ(Mat, MatType,MatReuse,Mat*);
1798d769727bSBarry Smith 
17995c9eb25fSBarry Smith #undef __FUNCT__
18005c9eb25fSBarry Smith #define __FUNCT__ "MatGetFactor_seqsbaij_petsc"
18018cc058d9SJed Brown PETSC_EXTERN PetscErrorCode MatGetFactor_seqsbaij_petsc(Mat A,MatFactorType ftype,Mat *B)
18025c9eb25fSBarry Smith {
1803d0f46423SBarry Smith   PetscInt       n = A->rmap->n;
18045c9eb25fSBarry Smith   PetscErrorCode ierr;
18055c9eb25fSBarry Smith 
18065c9eb25fSBarry Smith   PetscFunctionBegin;
18070e92d65fSHong Zhang #if defined(PETSC_USE_COMPLEX)
18080e92d65fSHong Zhang   if (A->hermitian) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Hermitian Factor is not supported");
18090e92d65fSHong Zhang #endif
1810ce94432eSBarry Smith   ierr = MatCreate(PetscObjectComm((PetscObject)A),B);CHKERRQ(ierr);
18115c9eb25fSBarry Smith   ierr = MatSetSizes(*B,n,n,n,n);CHKERRQ(ierr);
18125c9eb25fSBarry Smith   if (ftype == MAT_FACTOR_CHOLESKY || ftype == MAT_FACTOR_ICC) {
18135c9eb25fSBarry Smith     ierr = MatSetType(*B,MATSEQSBAIJ);CHKERRQ(ierr);
18140298fd71SBarry Smith     ierr = MatSeqSBAIJSetPreallocation(*B,A->rmap->bs,MAT_SKIP_ALLOCATION,NULL);CHKERRQ(ierr);
181526fbe8dcSKarl Rupp 
18167b056e98SHong Zhang     (*B)->ops->choleskyfactorsymbolic = MatCholeskyFactorSymbolic_SeqSBAIJ;
1817c6d0d4f0SHong Zhang     (*B)->ops->iccfactorsymbolic      = MatICCFactorSymbolic_SeqSBAIJ;
1818e32f2f54SBarry Smith   } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Factor type not supported");
1819d5f3da31SBarry Smith   (*B)->factortype = ftype;
18205c9eb25fSBarry Smith   PetscFunctionReturn(0);
18215c9eb25fSBarry Smith }
18225c9eb25fSBarry Smith 
18230bad9183SKris Buschelman /*MC
1824fafad747SKris Buschelman   MATSEQSBAIJ - MATSEQSBAIJ = "seqsbaij" - A matrix type to be used for sequential symmetric block sparse matrices,
18250bad9183SKris Buschelman   based on block compressed sparse row format.  Only the upper triangular portion of the matrix is stored.
18260bad9183SKris Buschelman 
1827828413b8SBarry Smith   For complex numbers by default this matrix is symmetric, NOT Hermitian symmetric. To make it Hermitian symmetric you
182871dad5bbSBarry Smith   can call MatSetOption(Mat, MAT_HERMITIAN); after MatAssemblyEnd()
1829828413b8SBarry Smith 
18300bad9183SKris Buschelman   Options Database Keys:
18310bad9183SKris Buschelman   . -mat_type seqsbaij - sets the matrix type to "seqsbaij" during a call to MatSetFromOptions()
18320bad9183SKris Buschelman 
183371dad5bbSBarry Smith   Notes: By default if you insert values into the lower triangular part of the matrix they are simply ignored (since they are not
183471dad5bbSBarry Smith      stored and it is assumed they symmetric to the upper triangular). If you call MatSetOption(Mat,MAT_IGNORE_LOWER_TRIANGULAR,PETSC_FALSE) or use
183571dad5bbSBarry Smith      the options database -mat_ignore_lower_triangular false it will generate an error if you try to set a value in the lower triangular portion.
183671dad5bbSBarry Smith 
183771dad5bbSBarry Smith 
18380bad9183SKris Buschelman   Level: beginner
18390bad9183SKris Buschelman 
18400bad9183SKris Buschelman   .seealso: MatCreateSeqSBAIJ
18410bad9183SKris Buschelman M*/
18420bad9183SKris Buschelman 
18438cc058d9SJed Brown PETSC_EXTERN PetscErrorCode MatConvert_SeqSBAIJ_SeqSBSTRM(Mat, MatType,MatReuse,Mat*);
1844aa5a9175SDahai Guo 
1845a23d5eceSKris Buschelman #undef __FUNCT__
1846a23d5eceSKris Buschelman #define __FUNCT__ "MatCreate_SeqSBAIJ"
18478cc058d9SJed Brown PETSC_EXTERN PetscErrorCode MatCreate_SeqSBAIJ(Mat B)
1848a23d5eceSKris Buschelman {
1849a23d5eceSKris Buschelman   Mat_SeqSBAIJ   *b;
1850dfbe8321SBarry Smith   PetscErrorCode ierr;
185113f74950SBarry Smith   PetscMPIInt    size;
1852ace3abfcSBarry Smith   PetscBool      no_unroll = PETSC_FALSE,no_inode = PETSC_FALSE;
1853a23d5eceSKris Buschelman 
1854a23d5eceSKris Buschelman   PetscFunctionBegin;
1855ce94432eSBarry Smith   ierr = MPI_Comm_size(PetscObjectComm((PetscObject)B),&size);CHKERRQ(ierr);
1856e32f2f54SBarry Smith   if (size > 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Comm must be of size 1");
1857a23d5eceSKris Buschelman 
1858b00a9115SJed Brown   ierr    = PetscNewLog(B,&b);CHKERRQ(ierr);
1859a23d5eceSKris Buschelman   B->data = (void*)b;
1860a23d5eceSKris Buschelman   ierr    = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr);
186126fbe8dcSKarl Rupp 
1862a23d5eceSKris Buschelman   B->ops->destroy    = MatDestroy_SeqSBAIJ;
1863a23d5eceSKris Buschelman   B->ops->view       = MatView_SeqSBAIJ;
1864a23d5eceSKris Buschelman   b->row             = 0;
1865a23d5eceSKris Buschelman   b->icol            = 0;
1866a23d5eceSKris Buschelman   b->reallocs        = 0;
1867a23d5eceSKris Buschelman   b->saved_values    = 0;
18680def2e27SBarry Smith   b->inode.limit     = 5;
18690def2e27SBarry Smith   b->inode.max_limit = 5;
1870a23d5eceSKris Buschelman 
1871a23d5eceSKris Buschelman   b->roworiented        = PETSC_TRUE;
1872a23d5eceSKris Buschelman   b->nonew              = 0;
1873a23d5eceSKris Buschelman   b->diag               = 0;
1874a23d5eceSKris Buschelman   b->solve_work         = 0;
1875a23d5eceSKris Buschelman   b->mult_work          = 0;
1876a23d5eceSKris Buschelman   B->spptr              = 0;
1877f2cbd3d5SJed Brown   B->info.nz_unneeded   = (PetscReal)b->maxnz*b->bs2;
1878a9817697SBarry Smith   b->keepnonzeropattern = PETSC_FALSE;
1879a23d5eceSKris Buschelman 
1880a23d5eceSKris Buschelman   b->inew    = 0;
1881a23d5eceSKris Buschelman   b->jnew    = 0;
1882a23d5eceSKris Buschelman   b->anew    = 0;
1883a23d5eceSKris Buschelman   b->a2anew  = 0;
1884a23d5eceSKris Buschelman   b->permute = PETSC_FALSE;
1885a23d5eceSKris Buschelman 
188671dad5bbSBarry Smith   b->ignore_ltriangular = PETSC_TRUE;
188726fbe8dcSKarl Rupp 
18880298fd71SBarry Smith   ierr = PetscOptionsGetBool(((PetscObject)B)->prefix,"-mat_ignore_lower_triangular",&b->ignore_ltriangular,NULL);CHKERRQ(ierr);
1889941593c8SHong Zhang 
1890f5edf698SHong Zhang   b->getrow_utriangular = PETSC_FALSE;
189126fbe8dcSKarl Rupp 
18920298fd71SBarry Smith   ierr = PetscOptionsGetBool(((PetscObject)B)->prefix,"-mat_getrow_uppertriangular",&b->getrow_utriangular,NULL);CHKERRQ(ierr);
1893f5edf698SHong Zhang 
1894bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)B,"MatStoreValues_C",MatStoreValues_SeqSBAIJ);CHKERRQ(ierr);
1895bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)B,"MatRetrieveValues_C",MatRetrieveValues_SeqSBAIJ);CHKERRQ(ierr);
1896bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJSetColumnIndices_C",MatSeqSBAIJSetColumnIndices_SeqSBAIJ);CHKERRQ(ierr);
1897bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)B,"MatConvert_seqsbaij_seqaij_C",MatConvert_SeqSBAIJ_SeqAIJ);CHKERRQ(ierr);
1898bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)B,"MatConvert_seqsbaij_seqbaij_C",MatConvert_SeqSBAIJ_SeqBAIJ);CHKERRQ(ierr);
1899bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJSetPreallocation_C",MatSeqSBAIJSetPreallocation_SeqSBAIJ);CHKERRQ(ierr);
190038f409ebSLisandro Dalcin   ierr = PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJSetPreallocationCSR_C",MatSeqSBAIJSetPreallocationCSR_SeqSBAIJ);CHKERRQ(ierr);
1901bdf89e91SBarry Smith   ierr = PetscObjectComposeFunction((PetscObject)B,"MatConvert_seqsbaij_seqsbstrm_C",MatConvert_SeqSBAIJ_SeqSBSTRM);CHKERRQ(ierr);
190223ce1328SBarry Smith 
190323ce1328SBarry Smith   B->symmetric                  = PETSC_TRUE;
190423ce1328SBarry Smith   B->structurally_symmetric     = PETSC_TRUE;
190523ce1328SBarry Smith   B->symmetric_set              = PETSC_TRUE;
190623ce1328SBarry Smith   B->structurally_symmetric_set = PETSC_TRUE;
190726fbe8dcSKarl Rupp 
190817667f90SBarry Smith   ierr = PetscObjectChangeTypeName((PetscObject)B,MATSEQSBAIJ);CHKERRQ(ierr);
19090def2e27SBarry Smith 
1910ce94432eSBarry Smith   ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)B),((PetscObject)B)->prefix,"Options for SEQSBAIJ matrix","Mat");CHKERRQ(ierr);
19110298fd71SBarry Smith   ierr = PetscOptionsBool("-mat_no_unroll","Do not optimize for inodes (slower)",NULL,no_unroll,&no_unroll,NULL);CHKERRQ(ierr);
191226fbe8dcSKarl Rupp   if (no_unroll) {
191326fbe8dcSKarl Rupp     ierr = PetscInfo(B,"Not using Inode routines due to -mat_no_unroll\n");CHKERRQ(ierr);
191426fbe8dcSKarl Rupp   }
19150298fd71SBarry Smith   ierr = PetscOptionsBool("-mat_no_inode","Do not optimize for inodes (slower)",NULL,no_inode,&no_inode,NULL);CHKERRQ(ierr);
191626fbe8dcSKarl Rupp   if (no_inode) {
191726fbe8dcSKarl Rupp     ierr = PetscInfo(B,"Not using Inode routines due to -mat_no_inode\n");CHKERRQ(ierr);
191826fbe8dcSKarl Rupp   }
19190298fd71SBarry Smith   ierr = PetscOptionsInt("-mat_inode_limit","Do not use inodes larger then this value",NULL,b->inode.limit,&b->inode.limit,NULL);CHKERRQ(ierr);
19200def2e27SBarry Smith   ierr = PetscOptionsEnd();CHKERRQ(ierr);
1921ace3abfcSBarry Smith   b->inode.use = (PetscBool)(!(no_unroll || no_inode));
19220def2e27SBarry Smith   if (b->inode.limit > b->inode.max_limit) b->inode.limit = b->inode.max_limit;
1923a23d5eceSKris Buschelman   PetscFunctionReturn(0);
1924a23d5eceSKris Buschelman }
1925a23d5eceSKris Buschelman 
1926a23d5eceSKris Buschelman #undef __FUNCT__
1927a23d5eceSKris Buschelman #define __FUNCT__ "MatSeqSBAIJSetPreallocation"
1928a23d5eceSKris Buschelman /*@C
1929a23d5eceSKris Buschelman    MatSeqSBAIJSetPreallocation - Creates a sparse symmetric matrix in block AIJ (block
1930a23d5eceSKris Buschelman    compressed row) format.  For good matrix assembly performance the
1931a23d5eceSKris Buschelman    user should preallocate the matrix storage by setting the parameter nz
1932a23d5eceSKris Buschelman    (or the array nnz).  By setting these parameters accurately, performance
1933a23d5eceSKris Buschelman    during matrix assembly can be increased by more than a factor of 50.
1934a23d5eceSKris Buschelman 
1935a23d5eceSKris Buschelman    Collective on Mat
1936a23d5eceSKris Buschelman 
1937a23d5eceSKris Buschelman    Input Parameters:
19381c4f3114SJed Brown +  B - the symmetric matrix
1939bb7ae925SBarry Smith .  bs - size of block, the blocks are ALWAYS square. One can use MatSetBlockSizes() to set a different row and column blocksize but the row
1940bb7ae925SBarry Smith           blocksize always defines the size of the blocks. The column blocksize sets the blocksize of the vectors obtained with MatCreateVecs()
1941a23d5eceSKris Buschelman .  nz - number of block nonzeros per block row (same for all rows)
1942a23d5eceSKris Buschelman -  nnz - array containing the number of block nonzeros in the upper triangular plus
19430298fd71SBarry Smith          diagonal portion of each block (possibly different for each block row) or NULL
1944a23d5eceSKris Buschelman 
1945a23d5eceSKris Buschelman    Options Database Keys:
1946a23d5eceSKris Buschelman .   -mat_no_unroll - uses code that does not unroll the loops in the
1947a23d5eceSKris Buschelman                      block calculations (much slower)
1948db4efbfdSBarry Smith .    -mat_block_size - size of the blocks to use (only works if a negative bs is passed in
1949a23d5eceSKris Buschelman 
1950a23d5eceSKris Buschelman    Level: intermediate
1951a23d5eceSKris Buschelman 
1952a23d5eceSKris Buschelman    Notes:
1953a23d5eceSKris Buschelman    Specify the preallocated storage with either nz or nnz (not both).
19540298fd71SBarry Smith    Set nz=PETSC_DEFAULT and nnz=NULL for PETSc to control dynamic memory
1955a7f22e61SSatish Balay    allocation.  See Users-Manual: ch_mat for details.
1956a23d5eceSKris Buschelman 
1957aa95bbe8SBarry Smith    You can call MatGetInfo() to get information on how effective the preallocation was;
1958aa95bbe8SBarry Smith    for example the fields mallocs,nz_allocated,nz_used,nz_unneeded;
1959aa95bbe8SBarry Smith    You can also run with the option -info and look for messages with the string
1960aa95bbe8SBarry Smith    malloc in them to see if additional memory allocation was needed.
1961aa95bbe8SBarry Smith 
196249a6f317SBarry Smith    If the nnz parameter is given then the nz parameter is ignored
196349a6f317SBarry Smith 
196449a6f317SBarry Smith 
196569b1f4b7SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateSBAIJ()
1966a23d5eceSKris Buschelman @*/
19677087cfbeSBarry Smith PetscErrorCode  MatSeqSBAIJSetPreallocation(Mat B,PetscInt bs,PetscInt nz,const PetscInt nnz[])
196813f74950SBarry Smith {
19694ac538c5SBarry Smith   PetscErrorCode ierr;
1970a23d5eceSKris Buschelman 
1971a23d5eceSKris Buschelman   PetscFunctionBegin;
19726ba663aaSJed Brown   PetscValidHeaderSpecific(B,MAT_CLASSID,1);
19736ba663aaSJed Brown   PetscValidType(B,1);
19746ba663aaSJed Brown   PetscValidLogicalCollectiveInt(B,bs,2);
19754ac538c5SBarry Smith   ierr = PetscTryMethod(B,"MatSeqSBAIJSetPreallocation_C",(Mat,PetscInt,PetscInt,const PetscInt[]),(B,bs,nz,nnz));CHKERRQ(ierr);
1976a23d5eceSKris Buschelman   PetscFunctionReturn(0);
1977a23d5eceSKris Buschelman }
197849b5e25fSSatish Balay 
19794a2ae208SSatish Balay #undef  __FUNCT__
198038f409ebSLisandro Dalcin #define __FUNCT__ "MatSeqSBAIJSetPreallocationCSR"
198138f409ebSLisandro Dalcin /*@C
198238f409ebSLisandro Dalcin    MatSeqSBAIJSetPreallocationCSR - Allocates memory for a sparse sequential matrix in symmetric block AIJ format.
198338f409ebSLisandro Dalcin 
198438f409ebSLisandro Dalcin    Input Parameters:
19851c4f3114SJed Brown +  B - the matrix
198638f409ebSLisandro Dalcin .  i - the indices into j for the start of each local row (starts with zero)
198738f409ebSLisandro Dalcin .  j - the column indices for each local row (starts with zero) these must be sorted for each row
198838f409ebSLisandro Dalcin -  v - optional values in the matrix
198938f409ebSLisandro Dalcin 
199038f409ebSLisandro Dalcin    Level: developer
199138f409ebSLisandro Dalcin 
199238f409ebSLisandro Dalcin    Notes:
199338f409ebSLisandro Dalcin    The order of the entries in values is specified by the MatOption MAT_ROW_ORIENTED.  For example, C programs
199438f409ebSLisandro Dalcin    may want to use the default MAT_ROW_ORIENTED=PETSC_TRUE and use an array v[nnz][bs][bs] where the second index is
199538f409ebSLisandro Dalcin    over rows within a block and the last index is over columns within a block row.  Fortran programs will likely set
199638f409ebSLisandro Dalcin    MAT_ROW_ORIENTED=PETSC_FALSE and use a Fortran array v(bs,bs,nnz) in which the first index is over rows within a
199738f409ebSLisandro Dalcin    block column and the second index is over columns within a block.
199838f409ebSLisandro Dalcin 
199938f409ebSLisandro Dalcin .keywords: matrix, block, aij, compressed row, sparse
200038f409ebSLisandro Dalcin 
200138f409ebSLisandro Dalcin .seealso: MatCreate(), MatCreateSeqSBAIJ(), MatSetValuesBlocked(), MatSeqSBAIJSetPreallocation(), MATSEQSBAIJ
200238f409ebSLisandro Dalcin @*/
200338f409ebSLisandro Dalcin PetscErrorCode MatSeqSBAIJSetPreallocationCSR(Mat B,PetscInt bs,const PetscInt i[],const PetscInt j[], const PetscScalar v[])
200438f409ebSLisandro Dalcin {
200538f409ebSLisandro Dalcin   PetscErrorCode ierr;
200638f409ebSLisandro Dalcin 
200738f409ebSLisandro Dalcin   PetscFunctionBegin;
200838f409ebSLisandro Dalcin   PetscValidHeaderSpecific(B,MAT_CLASSID,1);
200938f409ebSLisandro Dalcin   PetscValidType(B,1);
201038f409ebSLisandro Dalcin   PetscValidLogicalCollectiveInt(B,bs,2);
201138f409ebSLisandro Dalcin   ierr = PetscTryMethod(B,"MatSeqSBAIJSetPreallocationCSR_C",(Mat,PetscInt,const PetscInt[],const PetscInt[],const PetscScalar[]),(B,bs,i,j,v));CHKERRQ(ierr);
201238f409ebSLisandro Dalcin   PetscFunctionReturn(0);
201338f409ebSLisandro Dalcin }
201438f409ebSLisandro Dalcin 
201538f409ebSLisandro Dalcin #undef __FUNCT__
20164a2ae208SSatish Balay #define __FUNCT__ "MatCreateSeqSBAIJ"
2017c464158bSHong Zhang /*@C
2018c464158bSHong Zhang    MatCreateSeqSBAIJ - Creates a sparse symmetric matrix in block AIJ (block
2019c464158bSHong Zhang    compressed row) format.  For good matrix assembly performance the
2020c464158bSHong Zhang    user should preallocate the matrix storage by setting the parameter nz
2021c464158bSHong Zhang    (or the array nnz).  By setting these parameters accurately, performance
2022c464158bSHong Zhang    during matrix assembly can be increased by more than a factor of 50.
202349b5e25fSSatish Balay 
2024c464158bSHong Zhang    Collective on MPI_Comm
2025c464158bSHong Zhang 
2026c464158bSHong Zhang    Input Parameters:
2027c464158bSHong Zhang +  comm - MPI communicator, set to PETSC_COMM_SELF
2028bb7ae925SBarry Smith .  bs - size of block, the blocks are ALWAYS square. One can use MatSetBlockSizes() to set a different row and column blocksize but the row
2029bb7ae925SBarry Smith           blocksize always defines the size of the blocks. The column blocksize sets the blocksize of the vectors obtained with MatCreateVecs()
2030c464158bSHong Zhang .  m - number of rows, or number of columns
2031c464158bSHong Zhang .  nz - number of block nonzeros per block row (same for all rows)
2032744e8345SSatish Balay -  nnz - array containing the number of block nonzeros in the upper triangular plus
20330298fd71SBarry Smith          diagonal portion of each block (possibly different for each block row) or NULL
2034c464158bSHong Zhang 
2035c464158bSHong Zhang    Output Parameter:
2036c464158bSHong Zhang .  A - the symmetric matrix
2037c464158bSHong Zhang 
2038c464158bSHong Zhang    Options Database Keys:
2039c464158bSHong Zhang .   -mat_no_unroll - uses code that does not unroll the loops in the
2040c464158bSHong Zhang                      block calculations (much slower)
2041c464158bSHong Zhang .    -mat_block_size - size of the blocks to use
2042c464158bSHong Zhang 
2043c464158bSHong Zhang    Level: intermediate
2044c464158bSHong Zhang 
2045175b88e8SBarry Smith    It is recommended that one use the MatCreate(), MatSetType() and/or MatSetFromOptions(),
2046ae1d86c5SBarry Smith    MatXXXXSetPreallocation() paradgm instead of this routine directly.
2047175b88e8SBarry Smith    [MatXXXXSetPreallocation() is, for example, MatSeqAIJSetPreallocation]
2048175b88e8SBarry Smith 
2049c464158bSHong Zhang    Notes:
20506d6d819aSHong Zhang    The number of rows and columns must be divisible by blocksize.
20516d6d819aSHong Zhang    This matrix type does not support complex Hermitian operation.
2052c464158bSHong Zhang 
2053c464158bSHong Zhang    Specify the preallocated storage with either nz or nnz (not both).
20540298fd71SBarry Smith    Set nz=PETSC_DEFAULT and nnz=NULL for PETSc to control dynamic memory
2055a7f22e61SSatish Balay    allocation.  See Users-Manual: ch_mat for details.
2056c464158bSHong Zhang 
205749a6f317SBarry Smith    If the nnz parameter is given then the nz parameter is ignored
205849a6f317SBarry Smith 
205969b1f4b7SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateSBAIJ()
2060c464158bSHong Zhang @*/
20617087cfbeSBarry Smith PetscErrorCode  MatCreateSeqSBAIJ(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt nz,const PetscInt nnz[],Mat *A)
2062c464158bSHong Zhang {
2063dfbe8321SBarry Smith   PetscErrorCode ierr;
2064c464158bSHong Zhang 
2065c464158bSHong Zhang   PetscFunctionBegin;
2066f69a0ea3SMatthew Knepley   ierr = MatCreate(comm,A);CHKERRQ(ierr);
2067f69a0ea3SMatthew Knepley   ierr = MatSetSizes(*A,m,n,m,n);CHKERRQ(ierr);
2068c464158bSHong Zhang   ierr = MatSetType(*A,MATSEQSBAIJ);CHKERRQ(ierr);
2069ab93d7beSBarry Smith   ierr = MatSeqSBAIJSetPreallocation_SeqSBAIJ(*A,bs,nz,(PetscInt*)nnz);CHKERRQ(ierr);
207049b5e25fSSatish Balay   PetscFunctionReturn(0);
207149b5e25fSSatish Balay }
207249b5e25fSSatish Balay 
20734a2ae208SSatish Balay #undef __FUNCT__
20744a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_SeqSBAIJ"
2075dfbe8321SBarry Smith PetscErrorCode MatDuplicate_SeqSBAIJ(Mat A,MatDuplicateOption cpvalues,Mat *B)
207649b5e25fSSatish Balay {
207749b5e25fSSatish Balay   Mat            C;
207849b5e25fSSatish Balay   Mat_SeqSBAIJ   *c,*a = (Mat_SeqSBAIJ*)A->data;
20796849ba73SBarry Smith   PetscErrorCode ierr;
2080b40805acSSatish Balay   PetscInt       i,mbs = a->mbs,nz = a->nz,bs2 =a->bs2;
208149b5e25fSSatish Balay 
208249b5e25fSSatish Balay   PetscFunctionBegin;
2083e32f2f54SBarry Smith   if (a->i[mbs] != nz) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Corrupt matrix");
208449b5e25fSSatish Balay 
208549b5e25fSSatish Balay   *B   = 0;
2086ce94432eSBarry Smith   ierr = MatCreate(PetscObjectComm((PetscObject)A),&C);CHKERRQ(ierr);
2087d0f46423SBarry Smith   ierr = MatSetSizes(C,A->rmap->N,A->cmap->n,A->rmap->N,A->cmap->n);CHKERRQ(ierr);
20888e9a0fb8SHong Zhang   ierr = MatSetType(C,MATSEQSBAIJ);CHKERRQ(ierr);
20891d5dac46SHong Zhang   ierr = PetscMemcpy(C->ops,A->ops,sizeof(struct _MatOps));CHKERRQ(ierr);
2090692f9cbeSHong Zhang   c    = (Mat_SeqSBAIJ*)C->data;
2091692f9cbeSHong Zhang 
2092273d9f13SBarry Smith   C->preallocated       = PETSC_TRUE;
2093d5f3da31SBarry Smith   C->factortype         = A->factortype;
209449b5e25fSSatish Balay   c->row                = 0;
209549b5e25fSSatish Balay   c->icol               = 0;
209649b5e25fSSatish Balay   c->saved_values       = 0;
2097a9817697SBarry Smith   c->keepnonzeropattern = a->keepnonzeropattern;
209849b5e25fSSatish Balay   C->assembled          = PETSC_TRUE;
209949b5e25fSSatish Balay 
21001e1e43feSBarry Smith   ierr   = PetscLayoutReference(A->rmap,&C->rmap);CHKERRQ(ierr);
21011e1e43feSBarry Smith   ierr   = PetscLayoutReference(A->cmap,&C->cmap);CHKERRQ(ierr);
210249b5e25fSSatish Balay   c->bs2 = a->bs2;
210349b5e25fSSatish Balay   c->mbs = a->mbs;
210449b5e25fSSatish Balay   c->nbs = a->nbs;
210549b5e25fSSatish Balay 
2106c760cd28SBarry Smith   if  (cpvalues == MAT_SHARE_NONZERO_PATTERN) {
2107c760cd28SBarry Smith     c->imax           = a->imax;
2108c760cd28SBarry Smith     c->ilen           = a->ilen;
2109c760cd28SBarry Smith     c->free_imax_ilen = PETSC_FALSE;
2110c760cd28SBarry Smith   } else {
2111dcca6d9dSJed Brown     ierr = PetscMalloc2((mbs+1),&c->imax,(mbs+1),&c->ilen);CHKERRQ(ierr);
21123bb1ff40SBarry Smith     ierr = PetscLogObjectMemory((PetscObject)C,2*(mbs+1)*sizeof(PetscInt));CHKERRQ(ierr);
211349b5e25fSSatish Balay     for (i=0; i<mbs; i++) {
211449b5e25fSSatish Balay       c->imax[i] = a->imax[i];
211549b5e25fSSatish Balay       c->ilen[i] = a->ilen[i];
211649b5e25fSSatish Balay     }
2117c760cd28SBarry Smith     c->free_imax_ilen = PETSC_TRUE;
2118c760cd28SBarry Smith   }
211949b5e25fSSatish Balay 
212049b5e25fSSatish Balay   /* allocate the matrix space */
21214da8f245SBarry Smith   if (cpvalues == MAT_SHARE_NONZERO_PATTERN) {
2122785e854fSJed Brown     ierr            = PetscMalloc1(bs2*nz,&c->a);CHKERRQ(ierr);
21233bb1ff40SBarry Smith     ierr            = PetscLogObjectMemory((PetscObject)C,nz*bs2*sizeof(MatScalar));CHKERRQ(ierr);
212444e1c64aSLisandro Dalcin     c->i            = a->i;
212544e1c64aSLisandro Dalcin     c->j            = a->j;
21264da8f245SBarry Smith     c->singlemalloc = PETSC_FALSE;
212744e1c64aSLisandro Dalcin     c->free_a       = PETSC_TRUE;
21284da8f245SBarry Smith     c->free_ij      = PETSC_FALSE;
21294da8f245SBarry Smith     c->parent       = A;
21304da8f245SBarry Smith     ierr            = PetscObjectReference((PetscObject)A);CHKERRQ(ierr);
21314da8f245SBarry Smith     ierr            = MatSetOption(A,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr);
21324da8f245SBarry Smith     ierr            = MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);CHKERRQ(ierr);
21334da8f245SBarry Smith   } else {
2134dcca6d9dSJed Brown     ierr            = PetscMalloc3(bs2*nz,&c->a,nz,&c->j,mbs+1,&c->i);CHKERRQ(ierr);
213513f74950SBarry Smith     ierr            = PetscMemcpy(c->i,a->i,(mbs+1)*sizeof(PetscInt));CHKERRQ(ierr);
21363bb1ff40SBarry Smith     ierr            = PetscLogObjectMemory((PetscObject)C,(mbs+1)*sizeof(PetscInt) + nz*(bs2*sizeof(MatScalar) + sizeof(PetscInt)));CHKERRQ(ierr);
21374da8f245SBarry Smith     c->singlemalloc = PETSC_TRUE;
213844e1c64aSLisandro Dalcin     c->free_a       = PETSC_TRUE;
21394da8f245SBarry Smith     c->free_ij      = PETSC_TRUE;
21404da8f245SBarry Smith   }
214149b5e25fSSatish Balay   if (mbs > 0) {
21424da8f245SBarry Smith     if (cpvalues != MAT_SHARE_NONZERO_PATTERN) {
214313f74950SBarry Smith       ierr = PetscMemcpy(c->j,a->j,nz*sizeof(PetscInt));CHKERRQ(ierr);
21444da8f245SBarry Smith     }
214549b5e25fSSatish Balay     if (cpvalues == MAT_COPY_VALUES) {
214649b5e25fSSatish Balay       ierr = PetscMemcpy(c->a,a->a,bs2*nz*sizeof(MatScalar));CHKERRQ(ierr);
214749b5e25fSSatish Balay     } else {
214849b5e25fSSatish Balay       ierr = PetscMemzero(c->a,bs2*nz*sizeof(MatScalar));CHKERRQ(ierr);
214949b5e25fSSatish Balay     }
2150a1c3900fSBarry Smith     if (a->jshort) {
215144e1c64aSLisandro Dalcin       /* cannot share jshort, it is reallocated in MatAssemblyEnd_SeqSBAIJ() */
215244e1c64aSLisandro Dalcin       /* if the parent matrix is reassembled, this child matrix will never notice */
2153785e854fSJed Brown       ierr = PetscMalloc1(nz,&c->jshort);CHKERRQ(ierr);
21543bb1ff40SBarry Smith       ierr = PetscLogObjectMemory((PetscObject)C,nz*sizeof(unsigned short));CHKERRQ(ierr);
2155a1c3900fSBarry Smith       ierr = PetscMemcpy(c->jshort,a->jshort,nz*sizeof(unsigned short));CHKERRQ(ierr);
215626fbe8dcSKarl Rupp 
21574da8f245SBarry Smith       c->free_jshort = PETSC_TRUE;
21584da8f245SBarry Smith     }
2159a1c3900fSBarry Smith   }
216049b5e25fSSatish Balay 
216149b5e25fSSatish Balay   c->roworiented = a->roworiented;
216249b5e25fSSatish Balay   c->nonew       = a->nonew;
216349b5e25fSSatish Balay 
216449b5e25fSSatish Balay   if (a->diag) {
2165c760cd28SBarry Smith     if (cpvalues == MAT_SHARE_NONZERO_PATTERN) {
2166c760cd28SBarry Smith       c->diag      = a->diag;
2167c760cd28SBarry Smith       c->free_diag = PETSC_FALSE;
2168c760cd28SBarry Smith     } else {
2169785e854fSJed Brown       ierr = PetscMalloc1(mbs,&c->diag);CHKERRQ(ierr);
21703bb1ff40SBarry Smith       ierr = PetscLogObjectMemory((PetscObject)C,mbs*sizeof(PetscInt));CHKERRQ(ierr);
217126fbe8dcSKarl Rupp       for (i=0; i<mbs; i++) c->diag[i] = a->diag[i];
2172c760cd28SBarry Smith       c->free_diag = PETSC_TRUE;
2173c760cd28SBarry Smith     }
217444e1c64aSLisandro Dalcin   }
21756c6c5352SBarry Smith   c->nz         = a->nz;
2176f2cbd3d5SJed Brown   c->maxnz      = a->nz; /* Since we allocate exactly the right amount */
217749b5e25fSSatish Balay   c->solve_work = 0;
217849b5e25fSSatish Balay   c->mult_work  = 0;
217926fbe8dcSKarl Rupp 
218049b5e25fSSatish Balay   *B   = C;
2181140e18c1SBarry Smith   ierr = PetscFunctionListDuplicate(((PetscObject)A)->qlist,&((PetscObject)C)->qlist);CHKERRQ(ierr);
218249b5e25fSSatish Balay   PetscFunctionReturn(0);
218349b5e25fSSatish Balay }
218449b5e25fSSatish Balay 
21854a2ae208SSatish Balay #undef __FUNCT__
21865bba2384SShri Abhyankar #define __FUNCT__ "MatLoad_SeqSBAIJ"
2187112444f4SShri Abhyankar PetscErrorCode MatLoad_SeqSBAIJ(Mat newmat,PetscViewer viewer)
21882f480046SShri Abhyankar {
21892f480046SShri Abhyankar   Mat_SeqSBAIJ   *a;
21902f480046SShri Abhyankar   PetscErrorCode ierr;
21912f480046SShri Abhyankar   int            fd;
21922f480046SShri Abhyankar   PetscMPIInt    size;
21932f480046SShri Abhyankar   PetscInt       i,nz,header[4],*rowlengths=0,M,N,bs=1;
21942f480046SShri Abhyankar   PetscInt       *mask,mbs,*jj,j,rowcount,nzcount,k,*s_browlengths,maskcount;
21952f480046SShri Abhyankar   PetscInt       kmax,jcount,block,idx,point,nzcountb,extra_rows,rows,cols;
21962f480046SShri Abhyankar   PetscInt       *masked,nmask,tmp,bs2,ishift;
21972f480046SShri Abhyankar   PetscScalar    *aa;
2198ce94432eSBarry Smith   MPI_Comm       comm;
21992f480046SShri Abhyankar 
22002f480046SShri Abhyankar   PetscFunctionBegin;
2201ce94432eSBarry Smith   ierr = PetscObjectGetComm((PetscObject)viewer,&comm);CHKERRQ(ierr);
22020298fd71SBarry Smith   ierr = PetscOptionsGetInt(((PetscObject)newmat)->prefix,"-matload_block_size",&bs,NULL);CHKERRQ(ierr);
22032f480046SShri Abhyankar   bs2  = bs*bs;
22042f480046SShri Abhyankar 
22052f480046SShri Abhyankar   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
22062f480046SShri Abhyankar   if (size > 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"view must have one processor");
22072f480046SShri Abhyankar   ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr);
22082f480046SShri Abhyankar   ierr = PetscBinaryRead(fd,header,4,PETSC_INT);CHKERRQ(ierr);
22092f480046SShri Abhyankar   if (header[0] != MAT_FILE_CLASSID) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"not Mat object");
22102f480046SShri Abhyankar   M = header[1]; N = header[2]; nz = header[3];
22112f480046SShri Abhyankar 
22122f480046SShri Abhyankar   if (header[3] < 0) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"Matrix stored in special format, cannot load as SeqSBAIJ");
22132f480046SShri Abhyankar 
22142f480046SShri Abhyankar   if (M != N) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Can only do square matrices");
22152f480046SShri Abhyankar 
22162f480046SShri Abhyankar   /*
22172f480046SShri Abhyankar      This code adds extra rows to make sure the number of rows is
22182f480046SShri Abhyankar     divisible by the blocksize
22192f480046SShri Abhyankar   */
22202f480046SShri Abhyankar   mbs        = M/bs;
22212f480046SShri Abhyankar   extra_rows = bs - M + bs*(mbs);
22222f480046SShri Abhyankar   if (extra_rows == bs) extra_rows = 0;
22232f480046SShri Abhyankar   else                  mbs++;
22242f480046SShri Abhyankar   if (extra_rows) {
22252f480046SShri Abhyankar     ierr = PetscInfo(viewer,"Padding loaded matrix to match blocksize\n");CHKERRQ(ierr);
22262f480046SShri Abhyankar   }
22272f480046SShri Abhyankar 
22282f480046SShri Abhyankar   /* Set global sizes if not already set */
22292f480046SShri Abhyankar   if (newmat->rmap->n < 0 && newmat->rmap->N < 0 && newmat->cmap->n < 0 && newmat->cmap->N < 0) {
22302f480046SShri Abhyankar     ierr = MatSetSizes(newmat,PETSC_DECIDE,PETSC_DECIDE,M+extra_rows,N+extra_rows);CHKERRQ(ierr);
22312f480046SShri Abhyankar   } else { /* Check if the matrix global sizes are correct */
22322f480046SShri Abhyankar     ierr = MatGetSize(newmat,&rows,&cols);CHKERRQ(ierr);
22332f480046SShri Abhyankar     if (M != rows ||  N != cols) SETERRQ4(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"Matrix in file of different length (%d, %d) than the input matrix (%d, %d)",M,N,rows,cols);
22342f480046SShri Abhyankar   }
22352f480046SShri Abhyankar 
22362f480046SShri Abhyankar   /* read in row lengths */
2237*854ce69bSBarry Smith   ierr = PetscMalloc1(M+extra_rows,&rowlengths);CHKERRQ(ierr);
22382f480046SShri Abhyankar   ierr = PetscBinaryRead(fd,rowlengths,M,PETSC_INT);CHKERRQ(ierr);
22392f480046SShri Abhyankar   for (i=0; i<extra_rows; i++) rowlengths[M+i] = 1;
22402f480046SShri Abhyankar 
22412f480046SShri Abhyankar   /* read in column indices */
2242*854ce69bSBarry Smith   ierr = PetscMalloc1(nz+extra_rows,&jj);CHKERRQ(ierr);
22432f480046SShri Abhyankar   ierr = PetscBinaryRead(fd,jj,nz,PETSC_INT);CHKERRQ(ierr);
22442f480046SShri Abhyankar   for (i=0; i<extra_rows; i++) jj[nz+i] = M+i;
22452f480046SShri Abhyankar 
22462f480046SShri Abhyankar   /* loop over row lengths determining block row lengths */
22471795a4d1SJed Brown   ierr     = PetscCalloc1(mbs,&s_browlengths);CHKERRQ(ierr);
2248dcca6d9dSJed Brown   ierr     = PetscMalloc2(mbs,&mask,mbs,&masked);CHKERRQ(ierr);
22492f480046SShri Abhyankar   ierr     = PetscMemzero(mask,mbs*sizeof(PetscInt));CHKERRQ(ierr);
22502f480046SShri Abhyankar   rowcount = 0;
22512f480046SShri Abhyankar   nzcount  = 0;
22522f480046SShri Abhyankar   for (i=0; i<mbs; i++) {
22532f480046SShri Abhyankar     nmask = 0;
22542f480046SShri Abhyankar     for (j=0; j<bs; j++) {
22552f480046SShri Abhyankar       kmax = rowlengths[rowcount];
22562f480046SShri Abhyankar       for (k=0; k<kmax; k++) {
22572f480046SShri Abhyankar         tmp = jj[nzcount++]/bs;   /* block col. index */
22582f480046SShri Abhyankar         if (!mask[tmp] && tmp >= i) {masked[nmask++] = tmp; mask[tmp] = 1;}
22592f480046SShri Abhyankar       }
22602f480046SShri Abhyankar       rowcount++;
22612f480046SShri Abhyankar     }
22622f480046SShri Abhyankar     s_browlengths[i] += nmask;
22632f480046SShri Abhyankar 
22642f480046SShri Abhyankar     /* zero out the mask elements we set */
22652f480046SShri Abhyankar     for (j=0; j<nmask; j++) mask[masked[j]] = 0;
22662f480046SShri Abhyankar   }
22672f480046SShri Abhyankar 
22682f480046SShri Abhyankar   /* Do preallocation */
22692f480046SShri Abhyankar   ierr = MatSeqSBAIJSetPreallocation_SeqSBAIJ(newmat,bs,0,s_browlengths);CHKERRQ(ierr);
22702f480046SShri Abhyankar   a    = (Mat_SeqSBAIJ*)newmat->data;
22712f480046SShri Abhyankar 
22722f480046SShri Abhyankar   /* set matrix "i" values */
22732f480046SShri Abhyankar   a->i[0] = 0;
22742f480046SShri Abhyankar   for (i=1; i<= mbs; i++) {
22752f480046SShri Abhyankar     a->i[i]      = a->i[i-1] + s_browlengths[i-1];
22762f480046SShri Abhyankar     a->ilen[i-1] = s_browlengths[i-1];
22772f480046SShri Abhyankar   }
22782f480046SShri Abhyankar   a->nz = a->i[mbs];
22792f480046SShri Abhyankar 
22802f480046SShri Abhyankar   /* read in nonzero values */
2281*854ce69bSBarry Smith   ierr = PetscMalloc1(nz+extra_rows,&aa);CHKERRQ(ierr);
22822f480046SShri Abhyankar   ierr = PetscBinaryRead(fd,aa,nz,PETSC_SCALAR);CHKERRQ(ierr);
22832f480046SShri Abhyankar   for (i=0; i<extra_rows; i++) aa[nz+i] = 1.0;
22842f480046SShri Abhyankar 
22852f480046SShri Abhyankar   /* set "a" and "j" values into matrix */
22862f480046SShri Abhyankar   nzcount = 0; jcount = 0;
22872f480046SShri Abhyankar   for (i=0; i<mbs; i++) {
22882f480046SShri Abhyankar     nzcountb = nzcount;
22892f480046SShri Abhyankar     nmask    = 0;
22902f480046SShri Abhyankar     for (j=0; j<bs; j++) {
22912f480046SShri Abhyankar       kmax = rowlengths[i*bs+j];
22922f480046SShri Abhyankar       for (k=0; k<kmax; k++) {
22932f480046SShri Abhyankar         tmp = jj[nzcount++]/bs; /* block col. index */
22942f480046SShri Abhyankar         if (!mask[tmp] && tmp >= i) { masked[nmask++] = tmp; mask[tmp] = 1;}
22952f480046SShri Abhyankar       }
22962f480046SShri Abhyankar     }
22972f480046SShri Abhyankar     /* sort the masked values */
22982f480046SShri Abhyankar     ierr = PetscSortInt(nmask,masked);CHKERRQ(ierr);
22992f480046SShri Abhyankar 
23002f480046SShri Abhyankar     /* set "j" values into matrix */
23012f480046SShri Abhyankar     maskcount = 1;
23022f480046SShri Abhyankar     for (j=0; j<nmask; j++) {
23032f480046SShri Abhyankar       a->j[jcount++]  = masked[j];
23042f480046SShri Abhyankar       mask[masked[j]] = maskcount++;
23052f480046SShri Abhyankar     }
23062f480046SShri Abhyankar 
23072f480046SShri Abhyankar     /* set "a" values into matrix */
23082f480046SShri Abhyankar     ishift = bs2*a->i[i];
23092f480046SShri Abhyankar     for (j=0; j<bs; j++) {
23102f480046SShri Abhyankar       kmax = rowlengths[i*bs+j];
23112f480046SShri Abhyankar       for (k=0; k<kmax; k++) {
23122f480046SShri Abhyankar         tmp = jj[nzcountb]/bs;        /* block col. index */
23132f480046SShri Abhyankar         if (tmp >= i) {
23142f480046SShri Abhyankar           block     = mask[tmp] - 1;
23152f480046SShri Abhyankar           point     = jj[nzcountb] - bs*tmp;
23162f480046SShri Abhyankar           idx       = ishift + bs2*block + j + bs*point;
23172f480046SShri Abhyankar           a->a[idx] = aa[nzcountb];
23182f480046SShri Abhyankar         }
23192f480046SShri Abhyankar         nzcountb++;
23202f480046SShri Abhyankar       }
23212f480046SShri Abhyankar     }
23222f480046SShri Abhyankar     /* zero out the mask elements we set */
23232f480046SShri Abhyankar     for (j=0; j<nmask; j++) mask[masked[j]] = 0;
23242f480046SShri Abhyankar   }
23252f480046SShri Abhyankar   if (jcount != a->nz) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_FILE_UNEXPECTED,"Bad binary matrix");
23262f480046SShri Abhyankar 
23272f480046SShri Abhyankar   ierr = PetscFree(rowlengths);CHKERRQ(ierr);
23282f480046SShri Abhyankar   ierr = PetscFree(s_browlengths);CHKERRQ(ierr);
23292f480046SShri Abhyankar   ierr = PetscFree(aa);CHKERRQ(ierr);
23302f480046SShri Abhyankar   ierr = PetscFree(jj);CHKERRQ(ierr);
23312f480046SShri Abhyankar   ierr = PetscFree2(mask,masked);CHKERRQ(ierr);
23322f480046SShri Abhyankar 
23332f480046SShri Abhyankar   ierr = MatAssemblyBegin(newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
23342f480046SShri Abhyankar   ierr = MatAssemblyEnd(newmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
23352f480046SShri Abhyankar   PetscFunctionReturn(0);
23362f480046SShri Abhyankar }
23372f480046SShri Abhyankar 
23382f480046SShri Abhyankar #undef __FUNCT__
2339c75a6043SHong Zhang #define __FUNCT__ "MatCreateSeqSBAIJWithArrays"
2340c75a6043SHong Zhang /*@
2341c75a6043SHong Zhang      MatCreateSeqSBAIJWithArrays - Creates an sequential SBAIJ matrix using matrix elements
2342c75a6043SHong Zhang               (upper triangular entries in CSR format) provided by the user.
2343c75a6043SHong Zhang 
2344c75a6043SHong Zhang      Collective on MPI_Comm
2345c75a6043SHong Zhang 
2346c75a6043SHong Zhang    Input Parameters:
2347c75a6043SHong Zhang +  comm - must be an MPI communicator of size 1
2348c75a6043SHong Zhang .  bs - size of block
2349c75a6043SHong Zhang .  m - number of rows
2350c75a6043SHong Zhang .  n - number of columns
2351c75a6043SHong Zhang .  i - row indices
2352c75a6043SHong Zhang .  j - column indices
2353c75a6043SHong Zhang -  a - matrix values
2354c75a6043SHong Zhang 
2355c75a6043SHong Zhang    Output Parameter:
2356c75a6043SHong Zhang .  mat - the matrix
2357c75a6043SHong Zhang 
2358dfb205c3SBarry Smith    Level: advanced
2359c75a6043SHong Zhang 
2360c75a6043SHong Zhang    Notes:
2361c75a6043SHong Zhang        The i, j, and a arrays are not copied by this routine, the user must free these arrays
2362c75a6043SHong Zhang     once the matrix is destroyed
2363c75a6043SHong Zhang 
2364c75a6043SHong Zhang        You cannot set new nonzero locations into this matrix, that will generate an error.
2365c75a6043SHong Zhang 
2366c75a6043SHong Zhang        The i and j indices are 0 based
2367c75a6043SHong Zhang 
2368dfb205c3SBarry Smith        When block size is greater than 1 the matrix values must be stored using the SBAIJ storage format (see the SBAIJ code to determine this). For block size of 1
2369dfb205c3SBarry Smith        it is the regular CSR format excluding the lower triangular elements.
2370dfb205c3SBarry Smith 
237169b1f4b7SBarry Smith .seealso: MatCreate(), MatCreateSBAIJ(), MatCreateSeqSBAIJ()
2372c75a6043SHong Zhang 
2373c75a6043SHong Zhang @*/
23747087cfbeSBarry Smith PetscErrorCode  MatCreateSeqSBAIJWithArrays(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt *i,PetscInt *j,PetscScalar *a,Mat *mat)
2375c75a6043SHong Zhang {
2376c75a6043SHong Zhang   PetscErrorCode ierr;
2377c75a6043SHong Zhang   PetscInt       ii;
2378c75a6043SHong Zhang   Mat_SeqSBAIJ   *sbaij;
2379c75a6043SHong Zhang 
2380c75a6043SHong Zhang   PetscFunctionBegin;
2381e32f2f54SBarry Smith   if (bs != 1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"block size %D > 1 is not supported yet",bs);
2382e32f2f54SBarry Smith   if (i[0]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0");
2383c75a6043SHong Zhang 
2384c75a6043SHong Zhang   ierr  = MatCreate(comm,mat);CHKERRQ(ierr);
2385c75a6043SHong Zhang   ierr  = MatSetSizes(*mat,m,n,m,n);CHKERRQ(ierr);
2386c75a6043SHong Zhang   ierr  = MatSetType(*mat,MATSEQSBAIJ);CHKERRQ(ierr);
2387c75a6043SHong Zhang   ierr  = MatSeqSBAIJSetPreallocation_SeqSBAIJ(*mat,bs,MAT_SKIP_ALLOCATION,0);CHKERRQ(ierr);
2388c75a6043SHong Zhang   sbaij = (Mat_SeqSBAIJ*)(*mat)->data;
2389dcca6d9dSJed Brown   ierr  = PetscMalloc2(m,&sbaij->imax,m,&sbaij->ilen);CHKERRQ(ierr);
23903bb1ff40SBarry Smith   ierr  = PetscLogObjectMemory((PetscObject)*mat,2*m*sizeof(PetscInt));CHKERRQ(ierr);
2391c75a6043SHong Zhang 
2392c75a6043SHong Zhang   sbaij->i = i;
2393c75a6043SHong Zhang   sbaij->j = j;
2394c75a6043SHong Zhang   sbaij->a = a;
239526fbe8dcSKarl Rupp 
2396c75a6043SHong Zhang   sbaij->singlemalloc = PETSC_FALSE;
2397c75a6043SHong Zhang   sbaij->nonew        = -1;             /*this indicates that inserting a new value in the matrix that generates a new nonzero is an error*/
2398e6b907acSBarry Smith   sbaij->free_a       = PETSC_FALSE;
2399e6b907acSBarry Smith   sbaij->free_ij      = PETSC_FALSE;
2400c75a6043SHong Zhang 
2401c75a6043SHong Zhang   for (ii=0; ii<m; ii++) {
2402c75a6043SHong Zhang     sbaij->ilen[ii] = sbaij->imax[ii] = i[ii+1] - i[ii];
2403c75a6043SHong Zhang #if defined(PETSC_USE_DEBUG)
2404e32f2f54SBarry Smith     if (i[ii+1] - i[ii] < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative row length in i (row indices) row = %d length = %d",ii,i[ii+1] - i[ii]);
2405c75a6043SHong Zhang #endif
2406c75a6043SHong Zhang   }
2407c75a6043SHong Zhang #if defined(PETSC_USE_DEBUG)
2408c75a6043SHong Zhang   for (ii=0; ii<sbaij->i[m]; ii++) {
2409e32f2f54SBarry Smith     if (j[ii] < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative column index at location = %d index = %d",ii,j[ii]);
2410e32f2f54SBarry Smith     if (j[ii] > n - 1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Column index to large at location = %d index = %d",ii,j[ii]);
2411c75a6043SHong Zhang   }
2412c75a6043SHong Zhang #endif
2413c75a6043SHong Zhang 
2414c75a6043SHong Zhang   ierr = MatAssemblyBegin(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2415c75a6043SHong Zhang   ierr = MatAssemblyEnd(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2416c75a6043SHong Zhang   PetscFunctionReturn(0);
2417c75a6043SHong Zhang }
2418d06b337dSHong Zhang 
241959f5e6ceSHong Zhang #undef __FUNCT__
242059f5e6ceSHong Zhang #define __FUNCT__ "MatCreateMPIMatConcatenateSeqMat_SeqSBAIJ"
242159f5e6ceSHong Zhang PetscErrorCode MatCreateMPIMatConcatenateSeqMat_SeqSBAIJ(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat)
242259f5e6ceSHong Zhang {
242359f5e6ceSHong Zhang   PetscErrorCode ierr;
242459f5e6ceSHong Zhang 
242559f5e6ceSHong Zhang   PetscFunctionBegin;
242659f5e6ceSHong Zhang   ierr = MatCreateMPIMatConcatenateSeqMat_MPISBAIJ(comm,inmat,n,scall,outmat);CHKERRQ(ierr);
242759f5e6ceSHong Zhang   PetscFunctionReturn(0);
242859f5e6ceSHong Zhang }
2429d06b337dSHong Zhang 
2430d06b337dSHong Zhang 
243149b5e25fSSatish Balay 
243249b5e25fSSatish Balay 
2433