Date: 2021-03-03T22:26:20+00:00

Actual source code: sbaij.c
petsc-3.14.5 2021-03-03
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      2: /*
      3:     Defines the basic matrix operations for the SBAIJ (compressed row)
      4:   matrix storage format.
      5: */
      6: #include <../src/mat/impls/baij/seq/baij.h>
      7: #include <../src/mat/impls/sbaij/seq/sbaij.h>
      8: #include <petscblaslapack.h>

     10: #include <../src/mat/impls/sbaij/seq/relax.h>
     11: #define USESHORT
     12: #include <../src/mat/impls/sbaij/seq/relax.h>

     14: #if defined(PETSC_HAVE_ELEMENTAL)
     15: PETSC_INTERN PetscErrorCode MatConvert_SeqSBAIJ_Elemental(Mat,MatType,MatReuse,Mat*);
     16: #endif
     17: #if defined(PETSC_HAVE_SCALAPACK)
     18: PETSC_INTERN PetscErrorCode MatConvert_SBAIJ_ScaLAPACK(Mat,MatType,MatReuse,Mat*);
     19: #endif
     20: PETSC_INTERN PetscErrorCode MatConvert_MPISBAIJ_Basic(Mat,MatType,MatReuse,Mat*);

     22: /*
     23:      Checks for missing diagonals
     24: */
     25: PetscErrorCode MatMissingDiagonal_SeqSBAIJ(Mat A,PetscBool  *missing,PetscInt *dd)
     26: {
     27:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
     29:   PetscInt       *diag,*ii = a->i,i;

     32:   MatMarkDiagonal_SeqSBAIJ(A);
     33:   *missing = PETSC_FALSE;
     34:   if (A->rmap->n > 0 && !ii) {
     35:     *missing = PETSC_TRUE;
     36:     if (dd) *dd = 0;
     37:     PetscInfo(A,"Matrix has no entries therefore is missing diagonal\n");
     38:   } else {
     39:     diag = a->diag;
     40:     for (i=0; i<a->mbs; i++) {
     41:       if (diag[i] >= ii[i+1]) {
     42:         *missing = PETSC_TRUE;
     43:         if (dd) *dd = i;
     44:         break;
     45:       }
     46:     }
     47:   }
     48:   return(0);
     49: }

     51: PetscErrorCode MatMarkDiagonal_SeqSBAIJ(Mat A)
     52: {
     53:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
     55:   PetscInt       i,j;

     58:   if (!a->diag) {
     59:     PetscMalloc1(a->mbs,&a->diag);
     60:     PetscLogObjectMemory((PetscObject)A,a->mbs*sizeof(PetscInt));
     61:     a->free_diag = PETSC_TRUE;
     62:   }
     63:   for (i=0; i<a->mbs; i++) {
     64:     a->diag[i] = a->i[i+1];
     65:     for (j=a->i[i]; j<a->i[i+1]; j++) {
     66:       if (a->j[j] == i) {
     67:         a->diag[i] = j;
     68:         break;
     69:       }
     70:     }
     71:   }
     72:   return(0);
     73: }

     75: static PetscErrorCode MatGetRowIJ_SeqSBAIJ(Mat A,PetscInt oshift,PetscBool symmetric,PetscBool blockcompressed,PetscInt *nn,const PetscInt *inia[],const PetscInt *inja[],PetscBool  *done)
     76: {
     77:   Mat_SeqSBAIJ    *a = (Mat_SeqSBAIJ*)A->data;
     79:   PetscInt       i,j,n = a->mbs,nz = a->i[n],*tia,*tja,bs = A->rmap->bs,k,l,cnt;
     80:   PetscInt       **ia = (PetscInt**)inia,**ja = (PetscInt**)inja;

     83:   *nn = n;
     84:   if (!ia) return(0);
     85:   if (symmetric) {
     86:     MatToSymmetricIJ_SeqAIJ(n,a->i,a->j,PETSC_FALSE,0,0,&tia,&tja);
     87:     nz   = tia[n];
     88:   } else {
     89:     tia = a->i; tja = a->j;
     90:   }

     92:   if (!blockcompressed && bs > 1) {
     93:     (*nn) *= bs;
     94:     /* malloc & create the natural set of indices */
     95:     PetscMalloc1((n+1)*bs,ia);
     96:     if (n) {
     97:       (*ia)[0] = oshift;
     98:       for (j=1; j<bs; j++) {
     99:         (*ia)[j] = (tia[1]-tia[0])*bs+(*ia)[j-1];
    100:       }
    101:     }

    103:     for (i=1; i<n; i++) {
    104:       (*ia)[i*bs] = (tia[i]-tia[i-1])*bs + (*ia)[i*bs-1];
    105:       for (j=1; j<bs; j++) {
    106:         (*ia)[i*bs+j] = (tia[i+1]-tia[i])*bs + (*ia)[i*bs+j-1];
    107:       }
    108:     }
    109:     if (n) {
    110:       (*ia)[n*bs] = (tia[n]-tia[n-1])*bs + (*ia)[n*bs-1];
    111:     }

    113:     if (inja) {
    114:       PetscMalloc1(nz*bs*bs,ja);
    115:       cnt = 0;
    116:       for (i=0; i<n; i++) {
    117:         for (j=0; j<bs; j++) {
    118:           for (k=tia[i]; k<tia[i+1]; k++) {
    119:             for (l=0; l<bs; l++) {
    120:               (*ja)[cnt++] = bs*tja[k] + l;
    121:             }
    122:           }
    123:         }
    124:       }
    125:     }

    127:     if (symmetric) { /* deallocate memory allocated in MatToSymmetricIJ_SeqAIJ() */
    128:       PetscFree(tia);
    129:       PetscFree(tja);
    130:     }
    131:   } else if (oshift == 1) {
    132:     if (symmetric) {
    133:       nz = tia[A->rmap->n/bs];
    134:       /*  add 1 to i and j indices */
    135:       for (i=0; i<A->rmap->n/bs+1; i++) tia[i] = tia[i] + 1;
    136:       *ia = tia;
    137:       if (ja) {
    138:         for (i=0; i<nz; i++) tja[i] = tja[i] + 1;
    139:         *ja = tja;
    140:       }
    141:     } else {
    142:       nz = a->i[A->rmap->n/bs];
    143:       /* malloc space and  add 1 to i and j indices */
    144:       PetscMalloc1(A->rmap->n/bs+1,ia);
    145:       for (i=0; i<A->rmap->n/bs+1; i++) (*ia)[i] = a->i[i] + 1;
    146:       if (ja) {
    147:         PetscMalloc1(nz,ja);
    148:         for (i=0; i<nz; i++) (*ja)[i] = a->j[i] + 1;
    149:       }
    150:     }
    151:   } else {
    152:     *ia = tia;
    153:     if (ja) *ja = tja;
    154:   }
    155:   return(0);
    156: }

    158: static PetscErrorCode MatRestoreRowIJ_SeqSBAIJ(Mat A,PetscInt oshift,PetscBool symmetric,PetscBool blockcompressed,PetscInt *nn,const PetscInt *ia[],const PetscInt *ja[],PetscBool  *done)
    159: {

    163:   if (!ia) return(0);
    164:   if ((!blockcompressed && A->rmap->bs > 1) || (symmetric || oshift == 1)) {
    165:     PetscFree(*ia);
    166:     if (ja) {PetscFree(*ja);}
    167:   }
    168:   return(0);
    169: }

    171: PetscErrorCode MatDestroy_SeqSBAIJ(Mat A)
    172: {
    173:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;

    177: #if defined(PETSC_USE_LOG)
    178:   PetscLogObjectState((PetscObject)A,"Rows=%D, NZ=%D",A->rmap->N,a->nz);
    179: #endif
    180:   MatSeqXAIJFreeAIJ(A,&a->a,&a->j,&a->i);
    181:   if (a->free_diag) {PetscFree(a->diag);}
    182:   ISDestroy(&a->row);
    183:   ISDestroy(&a->col);
    184:   ISDestroy(&a->icol);
    185:   PetscFree(a->idiag);
    186:   PetscFree(a->inode.size);
    187:   if (a->free_imax_ilen) {PetscFree2(a->imax,a->ilen);}
    188:   PetscFree(a->solve_work);
    189:   PetscFree(a->sor_work);
    190:   PetscFree(a->solves_work);
    191:   PetscFree(a->mult_work);
    192:   PetscFree(a->saved_values);
    193:   if (a->free_jshort) {PetscFree(a->jshort);}
    194:   PetscFree(a->inew);
    195:   MatDestroy(&a->parent);
    196:   PetscFree(A->data);

    198:   PetscObjectChangeTypeName((PetscObject)A,NULL);
    199:   PetscObjectComposeFunction((PetscObject)A,"MatStoreValues_C",NULL);
    200:   PetscObjectComposeFunction((PetscObject)A,"MatRetrieveValues_C",NULL);
    201:   PetscObjectComposeFunction((PetscObject)A,"MatSeqSBAIJSetColumnIndices_C",NULL);
    202:   PetscObjectComposeFunction((PetscObject)A,"MatConvert_seqsbaij_seqaij_C",NULL);
    203:   PetscObjectComposeFunction((PetscObject)A,"MatConvert_seqsbaij_seqbaij_C",NULL);
    204:   PetscObjectComposeFunction((PetscObject)A,"MatSeqSBAIJSetPreallocation_C",NULL);
    205:   PetscObjectComposeFunction((PetscObject)A,"MatSeqSBAIJSetPreallocationCSR_C",NULL);
    206: #if defined(PETSC_HAVE_ELEMENTAL)
    207:   PetscObjectComposeFunction((PetscObject)A,"MatConvert_seqsbaij_elemental_C",NULL);
    208: #endif
    209: #if defined(PETSC_HAVE_SCALAPACK)
    210:   PetscObjectComposeFunction((PetscObject)A,"MatConvert_seqsbaij_scalapack_C",NULL);
    211: #endif
    212:   return(0);
    213: }

    215: PetscErrorCode MatSetOption_SeqSBAIJ(Mat A,MatOption op,PetscBool flg)
    216: {
    217:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
    218: #if defined(PETSC_USE_COMPLEX)
    219:   PetscInt       bs;
    220: #endif

    224: #if defined(PETSC_USE_COMPLEX)
    225:   MatGetBlockSize(A,&bs);
    226: #endif
    227:   switch (op) {
    228:   case MAT_ROW_ORIENTED:
    229:     a->roworiented = flg;
    230:     break;
    231:   case MAT_KEEP_NONZERO_PATTERN:
    232:     a->keepnonzeropattern = flg;
    233:     break;
    234:   case MAT_NEW_NONZERO_LOCATIONS:
    235:     a->nonew = (flg ? 0 : 1);
    236:     break;
    237:   case MAT_NEW_NONZERO_LOCATION_ERR:
    238:     a->nonew = (flg ? -1 : 0);
    239:     break;
    240:   case MAT_NEW_NONZERO_ALLOCATION_ERR:
    241:     a->nonew = (flg ? -2 : 0);
    242:     break;
    243:   case MAT_UNUSED_NONZERO_LOCATION_ERR:
    244:     a->nounused = (flg ? -1 : 0);
    245:     break;
    246:   case MAT_NEW_DIAGONALS:
    247:   case MAT_IGNORE_OFF_PROC_ENTRIES:
    248:   case MAT_USE_HASH_TABLE:
    249:   case MAT_SORTED_FULL:
    250:     PetscInfo1(A,"Option %s ignored\n",MatOptions[op]);
    251:     break;
    252:   case MAT_HERMITIAN:
    253: #if defined(PETSC_USE_COMPLEX)
    254:     if (flg) { /* disable transpose ops */
    255:       if (bs > 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support for Hermitian with block size greater than 1");
    256:       A->ops->multtranspose    = NULL;
    257:       A->ops->multtransposeadd = NULL;
    258:       A->symmetric             = PETSC_FALSE;
    259:     }
    260: #endif
    261:     break;
    262:   case MAT_SYMMETRIC:
    263:   case MAT_SPD:
    264: #if defined(PETSC_USE_COMPLEX)
    265:     if (flg) { /* An hermitian and symmetric matrix has zero imaginary part (restore back transpose ops) */
    266:       A->ops->multtranspose    = A->ops->mult;
    267:       A->ops->multtransposeadd = A->ops->multadd;
    268:     }
    269: #endif
    270:     break;
    271:     /* These options are handled directly by MatSetOption() */
    272:   case MAT_STRUCTURALLY_SYMMETRIC:
    273:   case MAT_SYMMETRY_ETERNAL:
    274:   case MAT_STRUCTURE_ONLY:
    275:     /* These options are handled directly by MatSetOption() */
    276:     break;
    277:   case MAT_IGNORE_LOWER_TRIANGULAR:
    278:     a->ignore_ltriangular = flg;
    279:     break;
    280:   case MAT_ERROR_LOWER_TRIANGULAR:
    281:     a->ignore_ltriangular = flg;
    282:     break;
    283:   case MAT_GETROW_UPPERTRIANGULAR:
    284:     a->getrow_utriangular = flg;
    285:     break;
    286:   case MAT_SUBMAT_SINGLEIS:
    287:     break;
    288:   default:
    289:     SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"unknown option %d",op);
    290:   }
    291:   return(0);
    292: }

    294: PetscErrorCode MatGetRow_SeqSBAIJ(Mat A,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
    295: {
    296:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;

    300:   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()");

    302:   /* Get the upper triangular part of the row */
    303:   MatGetRow_SeqBAIJ_private(A,row,nz,idx,v,a->i,a->j,a->a);
    304:   return(0);
    305: }

    307: PetscErrorCode MatRestoreRow_SeqSBAIJ(Mat A,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
    308: {

    312:   if (idx) {PetscFree(*idx);}
    313:   if (v)   {PetscFree(*v);}
    314:   return(0);
    315: }

    317: PetscErrorCode MatGetRowUpperTriangular_SeqSBAIJ(Mat A)
    318: {
    319:   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;

    322:   a->getrow_utriangular = PETSC_TRUE;
    323:   return(0);
    324: }

    326: PetscErrorCode MatRestoreRowUpperTriangular_SeqSBAIJ(Mat A)
    327: {
    328:   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;

    331:   a->getrow_utriangular = PETSC_FALSE;
    332:   return(0);
    333: }

    335: PetscErrorCode MatTranspose_SeqSBAIJ(Mat A,MatReuse reuse,Mat *B)
    336: {

    340:   if (reuse == MAT_INITIAL_MATRIX) {
    341:     MatDuplicate(A,MAT_COPY_VALUES,B);
    342:   } else if (reuse == MAT_REUSE_MATRIX) {
    343:     MatCopy(A,*B,SAME_NONZERO_PATTERN);
    344:   }
    345:   return(0);
    346: }

    348: PetscErrorCode MatView_SeqSBAIJ_ASCII(Mat A,PetscViewer viewer)
    349: {
    350:   Mat_SeqSBAIJ      *a = (Mat_SeqSBAIJ*)A->data;
    351:   PetscErrorCode    ierr;
    352:   PetscInt          i,j,bs = A->rmap->bs,k,l,bs2=a->bs2;
    353:   PetscViewerFormat format;
    354:   PetscInt          *diag;

    357:   PetscViewerGetFormat(viewer,&format);
    358:   if (format == PETSC_VIEWER_ASCII_INFO || format == PETSC_VIEWER_ASCII_INFO_DETAIL) {
    359:     PetscViewerASCIIPrintf(viewer,"  block size is %D\n",bs);
    360:   } else if (format == PETSC_VIEWER_ASCII_MATLAB) {
    361:     Mat        aij;
    362:     const char *matname;

    364:     if (A->factortype && bs>1) {
    365:       PetscPrintf(PETSC_COMM_SELF,"Warning: matrix is factored with bs>1. MatView() with PETSC_VIEWER_ASCII_MATLAB is not supported and ignored!\n");
    366:       return(0);
    367:     }
    368:     MatConvert(A,MATSEQAIJ,MAT_INITIAL_MATRIX,&aij);
    369:     PetscObjectGetName((PetscObject)A,&matname);
    370:     PetscObjectSetName((PetscObject)aij,matname);
    371:     MatView(aij,viewer);
    372:     MatDestroy(&aij);
    373:   } else if (format == PETSC_VIEWER_ASCII_COMMON) {
    374:     PetscViewerASCIIUseTabs(viewer,PETSC_FALSE);
    375:     for (i=0; i<a->mbs; i++) {
    376:       for (j=0; j<bs; j++) {
    377:         PetscViewerASCIIPrintf(viewer,"row %D:",i*bs+j);
    378:         for (k=a->i[i]; k<a->i[i+1]; k++) {
    379:           for (l=0; l<bs; l++) {
    380: #if defined(PETSC_USE_COMPLEX)
    381:             if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) > 0.0 && PetscRealPart(a->a[bs2*k + l*bs + j]) != 0.0) {
    382:               PetscViewerASCIIPrintf(viewer," (%D, %g + %g i) ",bs*a->j[k]+l,
    383:                                             (double)PetscRealPart(a->a[bs2*k + l*bs + j]),(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));
    384:             } else if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) < 0.0 && PetscRealPart(a->a[bs2*k + l*bs + j]) != 0.0) {
    385:               PetscViewerASCIIPrintf(viewer," (%D, %g - %g i) ",bs*a->j[k]+l,
    386:                                             (double)PetscRealPart(a->a[bs2*k + l*bs + j]),-(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));
    387:             } else if (PetscRealPart(a->a[bs2*k + l*bs + j]) != 0.0) {
    388:               PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)PetscRealPart(a->a[bs2*k + l*bs + j]));
    389:             }
    390: #else
    391:             if (a->a[bs2*k + l*bs + j] != 0.0) {
    392:               PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)a->a[bs2*k + l*bs + j]);
    393:             }
    394: #endif
    395:           }
    396:         }
    397:         PetscViewerASCIIPrintf(viewer,"\n");
    398:       }
    399:     }
    400:     PetscViewerASCIIUseTabs(viewer,PETSC_TRUE);
    401:   } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) {
    402:     return(0);
    403:   } else {
    404:     PetscViewerASCIIUseTabs(viewer,PETSC_FALSE);
    405:     if (A->factortype) { /* for factored matrix */
    406:       if (bs>1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"matrix is factored with bs>1. Not implemented yet");

    408:       diag=a->diag;
    409:       for (i=0; i<a->mbs; i++) { /* for row block i */
    410:         PetscViewerASCIIPrintf(viewer,"row %D:",i);
    411:         /* diagonal entry */
    412: #if defined(PETSC_USE_COMPLEX)
    413:         if (PetscImaginaryPart(a->a[diag[i]]) > 0.0) {
    414:           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]]));
    415:         } else if (PetscImaginaryPart(a->a[diag[i]]) < 0.0) {
    416:           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]]));
    417:         } else {
    418:           PetscViewerASCIIPrintf(viewer," (%D, %g) ",a->j[diag[i]],(double)PetscRealPart(1.0/a->a[diag[i]]));
    419:         }
    420: #else
    421:         PetscViewerASCIIPrintf(viewer," (%D, %g) ",a->j[diag[i]],(double)(1.0/a->a[diag[i]]));
    422: #endif
    423:         /* off-diagonal entries */
    424:         for (k=a->i[i]; k<a->i[i+1]-1; k++) {
    425: #if defined(PETSC_USE_COMPLEX)
    426:           if (PetscImaginaryPart(a->a[k]) > 0.0) {
    427:             PetscViewerASCIIPrintf(viewer," (%D, %g + %g i) ",bs*a->j[k],(double)PetscRealPart(a->a[k]),(double)PetscImaginaryPart(a->a[k]));
    428:           } else if (PetscImaginaryPart(a->a[k]) < 0.0) {
    429:             PetscViewerASCIIPrintf(viewer," (%D, %g - %g i) ",bs*a->j[k],(double)PetscRealPart(a->a[k]),-(double)PetscImaginaryPart(a->a[k]));
    430:           } else {
    431:             PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k],(double)PetscRealPart(a->a[k]));
    432:           }
    433: #else
    434:           PetscViewerASCIIPrintf(viewer," (%D, %g) ",a->j[k],(double)a->a[k]);
    435: #endif
    436:         }
    437:         PetscViewerASCIIPrintf(viewer,"\n");
    438:       }

    440:     } else { /* for non-factored matrix */
    441:       for (i=0; i<a->mbs; i++) { /* for row block i */
    442:         for (j=0; j<bs; j++) {   /* for row bs*i + j */
    443:           PetscViewerASCIIPrintf(viewer,"row %D:",i*bs+j);
    444:           for (k=a->i[i]; k<a->i[i+1]; k++) { /* for column block */
    445:             for (l=0; l<bs; l++) {            /* for column */
    446: #if defined(PETSC_USE_COMPLEX)
    447:               if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) > 0.0) {
    448:                 PetscViewerASCIIPrintf(viewer," (%D, %g + %g i) ",bs*a->j[k]+l,
    449:                                               (double)PetscRealPart(a->a[bs2*k + l*bs + j]),(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));
    450:               } else if (PetscImaginaryPart(a->a[bs2*k + l*bs + j]) < 0.0) {
    451:                 PetscViewerASCIIPrintf(viewer," (%D, %g - %g i) ",bs*a->j[k]+l,
    452:                                               (double)PetscRealPart(a->a[bs2*k + l*bs + j]),-(double)PetscImaginaryPart(a->a[bs2*k + l*bs + j]));
    453:               } else {
    454:                 PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)PetscRealPart(a->a[bs2*k + l*bs + j]));
    455:               }
    456: #else
    457:               PetscViewerASCIIPrintf(viewer," (%D, %g) ",bs*a->j[k]+l,(double)a->a[bs2*k + l*bs + j]);
    458: #endif
    459:             }
    460:           }
    461:           PetscViewerASCIIPrintf(viewer,"\n");
    462:         }
    463:       }
    464:     }
    465:     PetscViewerASCIIUseTabs(viewer,PETSC_TRUE);
    466:   }
    467:   PetscViewerFlush(viewer);
    468:   return(0);
    469: }

    471: #include <petscdraw.h>
    472: static PetscErrorCode MatView_SeqSBAIJ_Draw_Zoom(PetscDraw draw,void *Aa)
    473: {
    474:   Mat            A = (Mat) Aa;
    475:   Mat_SeqSBAIJ   *a=(Mat_SeqSBAIJ*)A->data;
    477:   PetscInt       row,i,j,k,l,mbs=a->mbs,color,bs=A->rmap->bs,bs2=a->bs2;
    478:   PetscReal      xl,yl,xr,yr,x_l,x_r,y_l,y_r;
    479:   MatScalar      *aa;
    480:   PetscViewer    viewer;

    483:   PetscObjectQuery((PetscObject)A,"Zoomviewer",(PetscObject*)&viewer);
    484:   PetscDrawGetCoordinates(draw,&xl,&yl,&xr,&yr);

    486:   /* loop over matrix elements drawing boxes */

    488:   PetscDrawCollectiveBegin(draw);
    489:   PetscDrawString(draw, .3*(xl+xr), .3*(yl+yr), PETSC_DRAW_BLACK, "symmetric");
    490:   /* Blue for negative, Cyan for zero and  Red for positive */
    491:   color = PETSC_DRAW_BLUE;
    492:   for (i=0,row=0; i<mbs; i++,row+=bs) {
    493:     for (j=a->i[i]; j<a->i[i+1]; j++) {
    494:       y_l = A->rmap->N - row - 1.0; y_r = y_l + 1.0;
    495:       x_l = a->j[j]*bs; x_r = x_l + 1.0;
    496:       aa  = a->a + j*bs2;
    497:       for (k=0; k<bs; k++) {
    498:         for (l=0; l<bs; l++) {
    499:           if (PetscRealPart(*aa++) >=  0.) continue;
    500:           PetscDrawRectangle(draw,x_l+k,y_l-l,x_r+k,y_r-l,color,color,color,color);
    501:         }
    502:       }
    503:     }
    504:   }
    505:   color = PETSC_DRAW_CYAN;
    506:   for (i=0,row=0; i<mbs; i++,row+=bs) {
    507:     for (j=a->i[i]; j<a->i[i+1]; j++) {
    508:       y_l = A->rmap->N - row - 1.0; y_r = y_l + 1.0;
    509:       x_l = a->j[j]*bs; x_r = x_l + 1.0;
    510:       aa = a->a + j*bs2;
    511:       for (k=0; k<bs; k++) {
    512:         for (l=0; l<bs; l++) {
    513:           if (PetscRealPart(*aa++) != 0.) continue;
    514:           PetscDrawRectangle(draw,x_l+k,y_l-l,x_r+k,y_r-l,color,color,color,color);
    515:         }
    516:       }
    517:     }
    518:   }
    519:   color = PETSC_DRAW_RED;
    520:   for (i=0,row=0; i<mbs; i++,row+=bs) {
    521:     for (j=a->i[i]; j<a->i[i+1]; j++) {
    522:       y_l = A->rmap->N - row - 1.0; y_r = y_l + 1.0;
    523:       x_l = a->j[j]*bs; x_r = x_l + 1.0;
    524:       aa = a->a + j*bs2;
    525:       for (k=0; k<bs; k++) {
    526:         for (l=0; l<bs; l++) {
    527:           if (PetscRealPart(*aa++) <= 0.) continue;
    528:           PetscDrawRectangle(draw,x_l+k,y_l-l,x_r+k,y_r-l,color,color,color,color);
    529:         }
    530:       }
    531:     }
    532:   }
    533:   PetscDrawCollectiveEnd(draw);
    534:   return(0);
    535: }

    537: static PetscErrorCode MatView_SeqSBAIJ_Draw(Mat A,PetscViewer viewer)
    538: {
    540:   PetscReal      xl,yl,xr,yr,w,h;
    541:   PetscDraw      draw;
    542:   PetscBool      isnull;

    545:   PetscViewerDrawGetDraw(viewer,0,&draw);
    546:   PetscDrawIsNull(draw,&isnull);
    547:   if (isnull) return(0);

    549:   xr   = A->rmap->N; yr = A->rmap->N; h = yr/10.0; w = xr/10.0;
    550:   xr  += w;          yr += h;        xl = -w;     yl = -h;
    551:   PetscDrawSetCoordinates(draw,xl,yl,xr,yr);
    552:   PetscObjectCompose((PetscObject)A,"Zoomviewer",(PetscObject)viewer);
    553:   PetscDrawZoom(draw,MatView_SeqSBAIJ_Draw_Zoom,A);
    554:   PetscObjectCompose((PetscObject)A,"Zoomviewer",NULL);
    555:   PetscDrawSave(draw);
    556:   return(0);
    557: }

    559: /* Used for both MPIBAIJ and MPISBAIJ matrices */
    560: #define MatView_SeqSBAIJ_Binary MatView_SeqBAIJ_Binary

    562: PetscErrorCode MatView_SeqSBAIJ(Mat A,PetscViewer viewer)
    563: {
    565:   PetscBool      iascii,isbinary,isdraw;

    568:   PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&iascii);
    569:   PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERBINARY,&isbinary);
    570:   PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERDRAW,&isdraw);
    571:   if (iascii) {
    572:     MatView_SeqSBAIJ_ASCII(A,viewer);
    573:   } else if (isbinary) {
    574:     MatView_SeqSBAIJ_Binary(A,viewer);
    575:   } else if (isdraw) {
    576:     MatView_SeqSBAIJ_Draw(A,viewer);
    577:   } else {
    578:     Mat        B;
    579:     const char *matname;
    580:     MatConvert(A,MATSEQAIJ,MAT_INITIAL_MATRIX,&B);
    581:     PetscObjectGetName((PetscObject)A,&matname);
    582:     PetscObjectSetName((PetscObject)B,matname);
    583:     MatView(B,viewer);
    584:     MatDestroy(&B);
    585:   }
    586:   return(0);
    587: }

    590: PetscErrorCode MatGetValues_SeqSBAIJ(Mat A,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],PetscScalar v[])
    591: {
    592:   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
    593:   PetscInt     *rp,k,low,high,t,row,nrow,i,col,l,*aj = a->j;
    594:   PetscInt     *ai = a->i,*ailen = a->ilen;
    595:   PetscInt     brow,bcol,ridx,cidx,bs=A->rmap->bs,bs2=a->bs2;
    596:   MatScalar    *ap,*aa = a->a;

    599:   for (k=0; k<m; k++) { /* loop over rows */
    600:     row = im[k]; brow = row/bs;
    601:     if (row < 0) {v += n; continue;} /* SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",row); */
    602:     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);
    603:     rp   = aj + ai[brow]; ap = aa + bs2*ai[brow];
    604:     nrow = ailen[brow];
    605:     for (l=0; l<n; l++) { /* loop over columns */
    606:       if (in[l] < 0) {v++; continue;} /* SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",in[l]); */
    607:       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);
    608:       col  = in[l];
    609:       bcol = col/bs;
    610:       cidx = col%bs;
    611:       ridx = row%bs;
    612:       high = nrow;
    613:       low  = 0; /* assume unsorted */
    614:       while (high-low > 5) {
    615:         t = (low+high)/2;
    616:         if (rp[t] > bcol) high = t;
    617:         else              low  = t;
    618:       }
    619:       for (i=low; i<high; i++) {
    620:         if (rp[i] > bcol) break;
    621:         if (rp[i] == bcol) {
    622:           *v++ = ap[bs2*i+bs*cidx+ridx];
    623:           goto finished;
    624:         }
    625:       }
    626:       *v++ = 0.0;
    627: finished:;
    628:     }
    629:   }
    630:   return(0);
    631: }

    634: PetscErrorCode MatSetValuesBlocked_SeqSBAIJ(Mat A,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode is)
    635: {
    636:   Mat_SeqSBAIJ      *a = (Mat_SeqSBAIJ*)A->data;
    637:   PetscErrorCode    ierr;
    638:   PetscInt          *rp,k,low,high,t,ii,jj,row,nrow,i,col,l,rmax,N,lastcol = -1;
    639:   PetscInt          *imax      =a->imax,*ai=a->i,*ailen=a->ilen;
    640:   PetscInt          *aj        =a->j,nonew=a->nonew,bs2=a->bs2,bs=A->rmap->bs,stepval;
    641:   PetscBool         roworiented=a->roworiented;
    642:   const PetscScalar *value     = v;
    643:   MatScalar         *ap,*aa = a->a,*bap;

    646:   if (roworiented) stepval = (n-1)*bs;
    647:   else stepval = (m-1)*bs;

    649:   for (k=0; k<m; k++) { /* loop over added rows */
    650:     row = im[k];
    651:     if (row < 0) continue;
    652:     if (PetscUnlikelyDebug(row >= a->mbs)) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Block index row too large %D max %D",row,a->mbs-1);
    653:     rp   = aj + ai[row];
    654:     ap   = aa + bs2*ai[row];
    655:     rmax = imax[row];
    656:     nrow = ailen[row];
    657:     low  = 0;
    658:     high = nrow;
    659:     for (l=0; l<n; l++) { /* loop over added columns */
    660:       if (in[l] < 0) continue;
    661:       col = in[l];
    662:       if (PetscUnlikelyDebug(col >= a->nbs)) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Block index column too large %D max %D",col,a->nbs-1);
    663:       if (col < row) {
    664:         if (a->ignore_ltriangular) continue; /* ignore lower triangular block */
    665:         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)");
    666:       }
    667:       if (roworiented) value = v + k*(stepval+bs)*bs + l*bs;
    668:       else value = v + l*(stepval+bs)*bs + k*bs;

    670:       if (col <= lastcol) low = 0;
    671:       else high = nrow;

    673:       lastcol = col;
    674:       while (high-low > 7) {
    675:         t = (low+high)/2;
    676:         if (rp[t] > col) high = t;
    677:         else             low  = t;
    678:       }
    679:       for (i=low; i<high; i++) {
    680:         if (rp[i] > col) break;
    681:         if (rp[i] == col) {
    682:           bap = ap +  bs2*i;
    683:           if (roworiented) {
    684:             if (is == ADD_VALUES) {
    685:               for (ii=0; ii<bs; ii++,value+=stepval) {
    686:                 for (jj=ii; jj<bs2; jj+=bs) {
    687:                   bap[jj] += *value++;
    688:                 }
    689:               }
    690:             } else {
    691:               for (ii=0; ii<bs; ii++,value+=stepval) {
    692:                 for (jj=ii; jj<bs2; jj+=bs) {
    693:                   bap[jj] = *value++;
    694:                 }
    695:                }
    696:             }
    697:           } else {
    698:             if (is == ADD_VALUES) {
    699:               for (ii=0; ii<bs; ii++,value+=stepval) {
    700:                 for (jj=0; jj<bs; jj++) {
    701:                   *bap++ += *value++;
    702:                 }
    703:               }
    704:             } else {
    705:               for (ii=0; ii<bs; ii++,value+=stepval) {
    706:                 for (jj=0; jj<bs; jj++) {
    707:                   *bap++  = *value++;
    708:                 }
    709:               }
    710:             }
    711:           }
    712:           goto noinsert2;
    713:         }
    714:       }
    715:       if (nonew == 1) goto noinsert2;
    716:       if (nonew == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new block index nonzero block (%D, %D) in the matrix", row, col);
    717:       MatSeqXAIJReallocateAIJ(A,a->mbs,bs2,nrow,row,col,rmax,aa,ai,aj,rp,ap,imax,nonew,MatScalar);
    718:       N = nrow++ - 1; high++;
    719:       /* shift up all the later entries in this row */
    720:       PetscArraymove(rp+i+1,rp+i,N-i+1);
    721:       PetscArraymove(ap+bs2*(i+1),ap+bs2*i,bs2*(N-i+1));
    722:       PetscArrayzero(ap+bs2*i,bs2);
    723:       rp[i] = col;
    724:       bap   = ap +  bs2*i;
    725:       if (roworiented) {
    726:         for (ii=0; ii<bs; ii++,value+=stepval) {
    727:           for (jj=ii; jj<bs2; jj+=bs) {
    728:             bap[jj] = *value++;
    729:           }
    730:         }
    731:       } else {
    732:         for (ii=0; ii<bs; ii++,value+=stepval) {
    733:           for (jj=0; jj<bs; jj++) {
    734:             *bap++ = *value++;
    735:           }
    736:         }
    737:        }
    738:     noinsert2:;
    739:       low = i;
    740:     }
    741:     ailen[row] = nrow;
    742:   }
    743:   return(0);
    744: }

    746: /*
    747:     This is not yet used
    748: */
    749: PetscErrorCode MatAssemblyEnd_SeqSBAIJ_SeqAIJ_Inode(Mat A)
    750: {
    751:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
    753:   const PetscInt *ai = a->i, *aj = a->j,*cols;
    754:   PetscInt       i   = 0,j,blk_size,m = A->rmap->n,node_count = 0,nzx,nzy,*ns,row,nz,cnt,cnt2,*counts;
    755:   PetscBool      flag;

    758:   PetscMalloc1(m,&ns);
    759:   while (i < m) {
    760:     nzx = ai[i+1] - ai[i];       /* Number of nonzeros */
    761:     /* Limits the number of elements in a node to 'a->inode.limit' */
    762:     for (j=i+1,blk_size=1; j<m && blk_size <a->inode.limit; ++j,++blk_size) {
    763:       nzy = ai[j+1] - ai[j];
    764:       if (nzy != (nzx - j + i)) break;
    765:       PetscArraycmp(aj + ai[i] + j - i,aj + ai[j],nzy,&flag);
    766:       if (!flag) break;
    767:     }
    768:     ns[node_count++] = blk_size;

    770:     i = j;
    771:   }
    772:   if (!a->inode.size && m && node_count > .9*m) {
    773:     PetscFree(ns);
    774:     PetscInfo2(A,"Found %D nodes out of %D rows. Not using Inode routines\n",node_count,m);
    775:   } else {
    776:     a->inode.node_count = node_count;

    778:     PetscMalloc1(node_count,&a->inode.size);
    779:     PetscLogObjectMemory((PetscObject)A,node_count*sizeof(PetscInt));
    780:     PetscArraycpy(a->inode.size,ns,node_count);
    781:     PetscFree(ns);
    782:     PetscInfo3(A,"Found %D nodes of %D. Limit used: %D. Using Inode routines\n",node_count,m,a->inode.limit);

    784:     /* count collections of adjacent columns in each inode */
    785:     row = 0;
    786:     cnt = 0;
    787:     for (i=0; i<node_count; i++) {
    788:       cols = aj + ai[row] + a->inode.size[i];
    789:       nz   = ai[row+1] - ai[row] - a->inode.size[i];
    790:       for (j=1; j<nz; j++) {
    791:         if (cols[j] != cols[j-1]+1) cnt++;
    792:       }
    793:       cnt++;
    794:       row += a->inode.size[i];
    795:     }
    796:     PetscMalloc1(2*cnt,&counts);
    797:     cnt  = 0;
    798:     row  = 0;
    799:     for (i=0; i<node_count; i++) {
    800:       cols = aj + ai[row] + a->inode.size[i];
    801:       counts[2*cnt] = cols[0];
    802:       nz   = ai[row+1] - ai[row] - a->inode.size[i];
    803:       cnt2 = 1;
    804:       for (j=1; j<nz; j++) {
    805:         if (cols[j] != cols[j-1]+1) {
    806:           counts[2*(cnt++)+1] = cnt2;
    807:           counts[2*cnt]       = cols[j];
    808:           cnt2 = 1;
    809:         } else cnt2++;
    810:       }
    811:       counts[2*(cnt++)+1] = cnt2;
    812:       row += a->inode.size[i];
    813:     }
    814:     PetscIntView(2*cnt,counts,NULL);
    815:   }
    816:   return(0);
    817: }

    819: PetscErrorCode MatAssemblyEnd_SeqSBAIJ(Mat A,MatAssemblyType mode)
    820: {
    821:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
    823:   PetscInt       fshift = 0,i,*ai = a->i,*aj = a->j,*imax = a->imax;
    824:   PetscInt       m      = A->rmap->N,*ip,N,*ailen = a->ilen;
    825:   PetscInt       mbs    = a->mbs,bs2 = a->bs2,rmax = 0;
    826:   MatScalar      *aa    = a->a,*ap;

    829:   if (mode == MAT_FLUSH_ASSEMBLY) return(0);

    831:   if (m) rmax = ailen[0];
    832:   for (i=1; i<mbs; i++) {
    833:     /* move each row back by the amount of empty slots (fshift) before it*/
    834:     fshift += imax[i-1] - ailen[i-1];
    835:     rmax    = PetscMax(rmax,ailen[i]);
    836:     if (fshift) {
    837:       ip = aj + ai[i];
    838:       ap = aa + bs2*ai[i];
    839:       N  = ailen[i];
    840:       PetscArraymove(ip-fshift,ip,N);
    841:       PetscArraymove(ap-bs2*fshift,ap,bs2*N);
    842:     }
    843:     ai[i] = ai[i-1] + ailen[i-1];
    844:   }
    845:   if (mbs) {
    846:     fshift += imax[mbs-1] - ailen[mbs-1];
    847:     ai[mbs] = ai[mbs-1] + ailen[mbs-1];
    848:   }
    849:   /* reset ilen and imax for each row */
    850:   for (i=0; i<mbs; i++) {
    851:     ailen[i] = imax[i] = ai[i+1] - ai[i];
    852:   }
    853:   a->nz = ai[mbs];

    855:   /* diagonals may have moved, reset it */
    856:   if (a->diag) {
    857:     PetscArraycpy(a->diag,ai,mbs);
    858:   }
    859:   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);

    861:   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);
    862:   PetscInfo1(A,"Number of mallocs during MatSetValues is %D\n",a->reallocs);
    863:   PetscInfo1(A,"Most nonzeros blocks in any row is %D\n",rmax);

    865:   A->info.mallocs    += a->reallocs;
    866:   a->reallocs         = 0;
    867:   A->info.nz_unneeded = (PetscReal)fshift*bs2;
    868:   a->idiagvalid       = PETSC_FALSE;
    869:   a->rmax             = rmax;

    871:   if (A->cmap->n < 65536 && A->cmap->bs == 1) {
    872:     if (a->jshort && a->free_jshort) {
    873:       /* when matrix data structure is changed, previous jshort must be replaced */
    874:       PetscFree(a->jshort);
    875:     }
    876:     PetscMalloc1(a->i[A->rmap->n],&a->jshort);
    877:     PetscLogObjectMemory((PetscObject)A,a->i[A->rmap->n]*sizeof(unsigned short));
    878:     for (i=0; i<a->i[A->rmap->n]; i++) a->jshort[i] = a->j[i];
    879:     A->ops->mult   = MatMult_SeqSBAIJ_1_ushort;
    880:     A->ops->sor    = MatSOR_SeqSBAIJ_ushort;
    881:     a->free_jshort = PETSC_TRUE;
    882:   }
    883:   return(0);
    884: }

    886: /*
    887:    This function returns an array of flags which indicate the locations of contiguous
    888:    blocks that should be zeroed. for eg: if bs = 3  and is = [0,1,2,3,5,6,7,8,9]
    889:    then the resulting sizes = [3,1,1,3,1] correspondig to sets [(0,1,2),(3),(5),(6,7,8),(9)]
    890:    Assume: sizes should be long enough to hold all the values.
    891: */
    892: PetscErrorCode MatZeroRows_SeqSBAIJ_Check_Blocks(PetscInt idx[],PetscInt n,PetscInt bs,PetscInt sizes[], PetscInt *bs_max)
    893: {
    894:   PetscInt  i,j,k,row;
    895:   PetscBool flg;

    898:   for (i=0,j=0; i<n; j++) {
    899:     row = idx[i];
    900:     if (row%bs!=0) { /* Not the begining of a block */
    901:       sizes[j] = 1;
    902:       i++;
    903:     } else if (i+bs > n) { /* Beginning of a block, but complete block doesn't exist (at idx end) */
    904:       sizes[j] = 1;         /* Also makes sure atleast 'bs' values exist for next else */
    905:       i++;
    906:     } else { /* Begining of the block, so check if the complete block exists */
    907:       flg = PETSC_TRUE;
    908:       for (k=1; k<bs; k++) {
    909:         if (row+k != idx[i+k]) { /* break in the block */
    910:           flg = PETSC_FALSE;
    911:           break;
    912:         }
    913:       }
    914:       if (flg) { /* No break in the bs */
    915:         sizes[j] = bs;
    916:         i       += bs;
    917:       } else {
    918:         sizes[j] = 1;
    919:         i++;
    920:       }
    921:     }
    922:   }
    923:   *bs_max = j;
    924:   return(0);
    925: }

    928: /* Only add/insert a(i,j) with i<=j (blocks).
    929:    Any a(i,j) with i>j input by user is ingored.
    930: */

    932: PetscErrorCode MatSetValues_SeqSBAIJ(Mat A,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode is)
    933: {
    934:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)A->data;
    936:   PetscInt       *rp,k,low,high,t,ii,row,nrow,i,col,l,rmax,N,lastcol = -1;
    937:   PetscInt       *imax=a->imax,*ai=a->i,*ailen=a->ilen,roworiented=a->roworiented;
    938:   PetscInt       *aj  =a->j,nonew=a->nonew,bs=A->rmap->bs,brow,bcol;
    939:   PetscInt       ridx,cidx,bs2=a->bs2;
    940:   MatScalar      *ap,value,*aa=a->a,*bap;

    943:   for (k=0; k<m; k++) { /* loop over added rows */
    944:     row  = im[k];       /* row number */
    945:     brow = row/bs;      /* block row number */
    946:     if (row < 0) continue;
    947:     if (PetscUnlikelyDebug(row >= A->rmap->N)) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",row,A->rmap->N-1);
    948:     rp   = aj + ai[brow]; /*ptr to beginning of column value of the row block*/
    949:     ap   = aa + bs2*ai[brow]; /*ptr to beginning of element value of the row block*/
    950:     rmax = imax[brow];  /* maximum space allocated for this row */
    951:     nrow = ailen[brow]; /* actual length of this row */
    952:     low  = 0;
    953:     high = nrow;
    954:     for (l=0; l<n; l++) { /* loop over added columns */
    955:       if (in[l] < 0) continue;
    956:       if (PetscUnlikelyDebug(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);
    957:       col  = in[l];
    958:       bcol = col/bs;              /* block col number */

    960:       if (brow > bcol) {
    961:         if (a->ignore_ltriangular) continue; /* ignore lower triangular values */
    962:         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)");
    963:       }

    965:       ridx = row % bs; cidx = col % bs; /*row and col index inside the block */
    966:       if ((brow==bcol && ridx<=cidx) || (brow<bcol)) {
    967:         /* element value a(k,l) */
    968:         if (roworiented) value = v[l + k*n];
    969:         else value = v[k + l*m];

    971:         /* move pointer bap to a(k,l) quickly and add/insert value */
    972:         if (col <= lastcol) low = 0;
    973:         else high = nrow;

    975:         lastcol = col;
    976:         while (high-low > 7) {
    977:           t = (low+high)/2;
    978:           if (rp[t] > bcol) high = t;
    979:           else              low  = t;
    980:         }
    981:         for (i=low; i<high; i++) {
    982:           if (rp[i] > bcol) break;
    983:           if (rp[i] == bcol) {
    984:             bap = ap +  bs2*i + bs*cidx + ridx;
    985:             if (is == ADD_VALUES) *bap += value;
    986:             else                  *bap  = value;
    987:             /* for diag block, add/insert its symmetric element a(cidx,ridx) */
    988:             if (brow == bcol && ridx < cidx) {
    989:               bap = ap +  bs2*i + bs*ridx + cidx;
    990:               if (is == ADD_VALUES) *bap += value;
    991:               else                  *bap  = value;
    992:             }
    993:             goto noinsert1;
    994:           }
    995:         }

    997:         if (nonew == 1) goto noinsert1;
    998:         if (nonew == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col);
    999:         MatSeqXAIJReallocateAIJ(A,a->mbs,bs2,nrow,brow,bcol,rmax,aa,ai,aj,rp,ap,imax,nonew,MatScalar);

    1001:         N = nrow++ - 1; high++;
    1002:         /* shift up all the later entries in this row */
    1003:         PetscArraymove(rp+i+1,rp+i,N-i+1);
    1004:         PetscArraymove(ap+bs2*(i+1),ap+bs2*i,bs2*(N-i+1));
    1005:         PetscArrayzero(ap+bs2*i,bs2);
    1006:         rp[i]                      = bcol;
    1007:         ap[bs2*i + bs*cidx + ridx] = value;
    1008:         /* for diag block, add/insert its symmetric element a(cidx,ridx) */
    1009:         if (brow == bcol && ridx < cidx) {
    1010:           ap[bs2*i + bs*ridx + cidx] = value;
    1011:         }
    1012:         A->nonzerostate++;
    1013: noinsert1:;
    1014:         low = i;
    1015:       }
    1016:     }   /* end of loop over added columns */
    1017:     ailen[brow] = nrow;
    1018:   }   /* end of loop over added rows */
    1019:   return(0);
    1020: }

    1022: PetscErrorCode MatICCFactor_SeqSBAIJ(Mat inA,IS row,const MatFactorInfo *info)
    1023: {
    1024:   Mat_SeqSBAIJ   *a = (Mat_SeqSBAIJ*)inA->data;
    1025:   Mat            outA;
    1027:   PetscBool      row_identity;

    1030:   if (info->levels != 0) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Only levels=0 is supported for in-place icc");
    1031:   ISIdentity(row,&row_identity);
    1032:   if (!row_identity) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Matrix reordering is not supported");
    1033:   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()! */

    1035:   outA            = inA;
    1036:   inA->factortype = MAT_FACTOR_ICC;
    1037:   PetscFree(inA->solvertype);
    1038:   PetscStrallocpy(MATSOLVERPETSC,&inA->solvertype);

    1040:   MatMarkDiagonal_SeqSBAIJ(inA);
    1041:   MatSeqSBAIJSetNumericFactorization_inplace(inA,row_identity);

    1043:   PetscObjectReference((PetscObject)row);
    1044:   ISDestroy(&a->row);
    1045:   a->row = row;
    1046:   PetscObjectReference((PetscObject)row);
    1047:   ISDestroy(&a->col);
    1048:   a->col = row;

    1050:   /* Create the invert permutation so that it can be used in MatCholeskyFactorNumeric() */
    1051:   if (a->icol) {ISInvertPermutation(row,PETSC_DECIDE, &a->icol);}
    1052:   PetscLogObjectParent((PetscObject)inA,(PetscObject)a->icol);

    1054:   if (!a->solve_work) {
    1055:     PetscMalloc1(inA->rmap->N+inA->rmap->bs,&a->solve_work);
    1056:     PetscLogObjectMemory((PetscObject)inA,(inA->rmap->N+inA->rmap->bs)*sizeof(PetscScalar));
    1057:   }

    1059:   MatCholeskyFactorNumeric(outA,inA,info);
    1060:   return(0);
    1061: }

    1063: PetscErrorCode  MatSeqSBAIJSetColumnIndices_SeqSBAIJ(Mat mat,PetscInt *indices)
    1064: {
    1065:   Mat_SeqSBAIJ   *baij = (Mat_SeqSBAIJ*)mat->data;
    1066:   PetscInt       i,nz,n;

    1070:   nz = baij->maxnz;
    1071:   n  = mat->cmap->n;
    1072:   for (i=0; i<nz; i++) baij->j[i] = indices[i];

    1074:   baij->nz = nz;
    1075:   for (i=0; i<n; i++) baij->ilen[i] = baij->imax[i];

    1077:   MatSetOption(mat,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);
    1078:   return(0);
    1079: }

    1081: /*@
    1082:   MatSeqSBAIJSetColumnIndices - Set the column indices for all the rows
    1083:   in the matrix.

    1085:   Input Parameters:
    1086:   +  mat     - the SeqSBAIJ matrix
    1087:   -  indices - the column indices

    1089:   Level: advanced

    1091:   Notes:
    1092:   This can be called if you have precomputed the nonzero structure of the
    1093:   matrix and want to provide it to the matrix object to improve the performance
    1094:   of the MatSetValues() operation.

    1096:   You MUST have set the correct numbers of nonzeros per row in the call to
    1097:   MatCreateSeqSBAIJ(), and the columns indices MUST be sorted.

    1099:   MUST be called before any calls to MatSetValues()

    1101:   .seealso: MatCreateSeqSBAIJ
    1102: @*/
    1103: PetscErrorCode  MatSeqSBAIJSetColumnIndices(Mat mat,PetscInt *indices)
    1104: {

    1110:   PetscUseMethod(mat,"MatSeqSBAIJSetColumnIndices_C",(Mat,PetscInt*),(mat,indices));
    1111:   return(0);
    1112: }

    1114: PetscErrorCode MatCopy_SeqSBAIJ(Mat A,Mat B,MatStructure str)
    1115: {
    1117:   PetscBool      isbaij;

    1120:   PetscObjectTypeCompareAny((PetscObject)B,&isbaij,MATSEQSBAIJ,MATMPISBAIJ,"");
    1121:   if (!isbaij) SETERRQ1(PetscObjectComm((PetscObject)B),PETSC_ERR_SUP,"Not for matrix type %s",((PetscObject)B)->type_name);
    1122:   /* If the two matrices have the same copy implementation and nonzero pattern, use fast copy. */
    1123:   if (str == SAME_NONZERO_PATTERN && A->ops->copy == B->ops->copy) {
    1124:     Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
    1125:     Mat_SeqSBAIJ *b = (Mat_SeqSBAIJ*)B->data;

    1127:     if (a->i[a->mbs] != b->i[b->mbs]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_INCOMP,"Number of nonzeros in two matrices are different");
    1128:     if (a->mbs != b->mbs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_INCOMP,"Number of rows in two matrices are different");
    1129:     if (a->bs2 != b->bs2) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_INCOMP,"Different block size");
    1130:     PetscArraycpy(b->a,a->a,a->bs2*a->i[a->mbs]);
    1131:     PetscObjectStateIncrease((PetscObject)B);
    1132:   } else {
    1133:     MatGetRowUpperTriangular(A);
    1134:     MatCopy_Basic(A,B,str);
    1135:     MatRestoreRowUpperTriangular(A);
    1136:   }
    1137:   return(0);
    1138: }

    1140: PetscErrorCode MatSetUp_SeqSBAIJ(Mat A)
    1141: {

    1145:   MatSeqSBAIJSetPreallocation(A,A->rmap->bs,PETSC_DEFAULT,NULL);
    1146:   return(0);
    1147: }

    1149: static PetscErrorCode MatSeqSBAIJGetArray_SeqSBAIJ(Mat A,PetscScalar *array[])
    1150: {
    1151:   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;

    1154:   *array = a->a;
    1155:   return(0);
    1156: }

    1158: static PetscErrorCode MatSeqSBAIJRestoreArray_SeqSBAIJ(Mat A,PetscScalar *array[])
    1159: {
    1161:   *array = NULL;
    1162:   return(0);
    1163: }

    1165: PetscErrorCode MatAXPYGetPreallocation_SeqSBAIJ(Mat Y,Mat X,PetscInt *nnz)
    1166: {
    1167:   PetscInt       bs = Y->rmap->bs,mbs = Y->rmap->N/bs;
    1168:   Mat_SeqSBAIJ   *x = (Mat_SeqSBAIJ*)X->data;
    1169:   Mat_SeqSBAIJ   *y = (Mat_SeqSBAIJ*)Y->data;

    1173:   /* Set the number of nonzeros in the new matrix */
    1174:   MatAXPYGetPreallocation_SeqX_private(mbs,x->i,x->j,y->i,y->j,nnz);
    1175:   return(0);
    1176: }

    1178: PetscErrorCode MatAXPY_SeqSBAIJ(Mat Y,PetscScalar a,Mat X,MatStructure str)
    1179: {
    1180:   Mat_SeqSBAIJ   *x=(Mat_SeqSBAIJ*)X->data, *y=(Mat_SeqSBAIJ*)Y->data;
    1182:   PetscInt       bs=Y->rmap->bs,bs2=bs*bs;
    1183:   PetscBLASInt   one = 1;

    1186:   if (str == SAME_NONZERO_PATTERN) {
    1187:     PetscScalar  alpha = a;
    1188:     PetscBLASInt bnz;
    1189:     PetscBLASIntCast(x->nz*bs2,&bnz);
    1190:     PetscStackCallBLAS("BLASaxpy",BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one));
    1191:     PetscObjectStateIncrease((PetscObject)Y);
    1192:   } else if (str == SUBSET_NONZERO_PATTERN) { /* nonzeros of X is a subset of Y's */
    1193:     MatSetOption(X,MAT_GETROW_UPPERTRIANGULAR,PETSC_TRUE);
    1194:     MatAXPY_Basic(Y,a,X,str);
    1195:     MatSetOption(X,MAT_GETROW_UPPERTRIANGULAR,PETSC_FALSE);
    1196:   } else {
    1197:     Mat      B;
    1198:     PetscInt *nnz;
    1199:     if (bs != X->rmap->bs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Matrices must have same block size");
    1200:     MatGetRowUpperTriangular(X);
    1201:     MatGetRowUpperTriangular(Y);
    1202:     PetscMalloc1(Y->rmap->N,&nnz);
    1203:     MatCreate(PetscObjectComm((PetscObject)Y),&B);
    1204:     PetscObjectSetName((PetscObject)B,((PetscObject)Y)->name);
    1205:     MatSetSizes(B,Y->rmap->n,Y->cmap->n,Y->rmap->N,Y->cmap->N);
    1206:     MatSetBlockSizesFromMats(B,Y,Y);
    1207:     MatSetType(B,((PetscObject)Y)->type_name);
    1208:     MatAXPYGetPreallocation_SeqSBAIJ(Y,X,nnz);
    1209:     MatSeqSBAIJSetPreallocation(B,bs,0,nnz);

    1211:     MatAXPY_BasicWithPreallocation(B,Y,a,X,str);

    1213:     MatHeaderReplace(Y,&B);
    1214:     PetscFree(nnz);
    1215:     MatRestoreRowUpperTriangular(X);
    1216:     MatRestoreRowUpperTriangular(Y);
    1217:   }
    1218:   return(0);
    1219: }

    1221: PetscErrorCode MatIsSymmetric_SeqSBAIJ(Mat A,PetscReal tol,PetscBool  *flg)
    1222: {
    1224:   *flg = PETSC_TRUE;
    1225:   return(0);
    1226: }

    1228: PetscErrorCode MatIsStructurallySymmetric_SeqSBAIJ(Mat A,PetscBool  *flg)
    1229: {
    1231:   *flg = PETSC_TRUE;
    1232:   return(0);
    1233: }

    1235: PetscErrorCode MatIsHermitian_SeqSBAIJ(Mat A,PetscReal tol,PetscBool  *flg)
    1236: {
    1238:   *flg = PETSC_FALSE;
    1239:   return(0);
    1240: }

    1242: PetscErrorCode MatRealPart_SeqSBAIJ(Mat A)
    1243: {
    1244:   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
    1245:   PetscInt     i,nz = a->bs2*a->i[a->mbs];
    1246:   MatScalar    *aa = a->a;

    1249:   for (i=0; i<nz; i++) aa[i] = PetscRealPart(aa[i]);
    1250:   return(0);
    1251: }

    1253: PetscErrorCode MatImaginaryPart_SeqSBAIJ(Mat A)
    1254: {
    1255:   Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)A->data;
    1256:   PetscInt     i,nz = a->bs2*a->i[a->mbs];
    1257:   MatScalar    *aa = a->a;

    1260:   for (i=0; i<nz; i++) aa[i] = PetscImaginaryPart(aa[i]);
    1261:   return(0);
    1262: }

    1264: PetscErrorCode MatZeroRowsColumns_SeqSBAIJ(Mat A,PetscInt is_n,const PetscInt is_idx[],PetscScalar diag,Vec x, Vec b)
    1265: {
    1266:   Mat_SeqSBAIJ      *baij=(Mat_SeqSBAIJ*)A->data;
    1267:   PetscErrorCode    ierr;
    1268:   PetscInt          i,j,k,count;
    1269:   PetscInt          bs   =A->rmap->bs,bs2=baij->bs2,row,col;
    1270:   PetscScalar       zero = 0.0;
    1271:   MatScalar         *aa;
    1272:   const PetscScalar *xx;
    1273:   PetscScalar       *bb;
    1274:   PetscBool         *zeroed,vecs = PETSC_FALSE;

    1277:   /* fix right hand side if needed */
    1278:   if (x && b) {
    1279:     VecGetArrayRead(x,&xx);
    1280:     VecGetArray(b,&bb);
    1281:     vecs = PETSC_TRUE;
    1282:   }

    1284:   /* zero the columns */
    1285:   PetscCalloc1(A->rmap->n,&zeroed);
    1286:   for (i=0; i<is_n; i++) {
    1287:     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]);
    1288:     zeroed[is_idx[i]] = PETSC_TRUE;
    1289:   }
    1290:   if (vecs) {
    1291:     for (i=0; i<A->rmap->N; i++) {
    1292:       row = i/bs;
    1293:       for (j=baij->i[row]; j<baij->i[row+1]; j++) {
    1294:         for (k=0; k<bs; k++) {
    1295:           col = bs*baij->j[j] + k;
    1296:           if (col <= i) continue;
    1297:           aa = ((MatScalar*)(baij->a)) + j*bs2 + (i%bs) + bs*k;
    1298:           if (!zeroed[i] && zeroed[col]) bb[i]   -= aa[0]*xx[col];
    1299:           if (zeroed[i] && !zeroed[col]) bb[col] -= aa[0]*xx[i];
    1300:         }
    1301:       }
    1302:     }
    1303:     for (i=0; i<is_n; i++) bb[is_idx[i]] = diag*xx[is_idx[i]];
    1304:   }

    1306:   for (i=0; i<A->rmap->N; i++) {
    1307:     if (!zeroed[i]) {
    1308:       row = i/bs;
    1309:       for (j=baij->i[row]; j<baij->i[row+1]; j++) {
    1310:         for (k=0; k<bs; k++) {
    1311:           col = bs*baij->j[j] + k;
    1312:           if (zeroed[col]) {
    1313:             aa = ((MatScalar*)(baij->a)) + j*bs2 + (i%bs) + bs*k;
    1314:             aa[0] = 0.0;
    1315:           }
    1316:         }
    1317:       }
    1318:     }
    1319:   }
    1320:   PetscFree(zeroed);
    1321:   if (vecs) {
    1322:     VecRestoreArrayRead(x,&xx);
    1323:     VecRestoreArray(b,&bb);
    1324:   }

    1326:   /* zero the rows */
    1327:   for (i=0; i<is_n; i++) {
    1328:     row   = is_idx[i];
    1329:     count = (baij->i[row/bs +1] - baij->i[row/bs])*bs;
    1330:     aa    = ((MatScalar*)(baij->a)) + baij->i[row/bs]*bs2 + (row%bs);
    1331:     for (k=0; k<count; k++) {
    1332:       aa[0] =  zero;
    1333:       aa   += bs;
    1334:     }
    1335:     if (diag != 0.0) {
    1336:       (*A->ops->setvalues)(A,1,&row,1,&row,&diag,INSERT_VALUES);
    1337:     }
    1338:   }
    1339:   MatAssemblyEnd_SeqSBAIJ(A,MAT_FINAL_ASSEMBLY);
    1340:   return(0);
    1341: }

    1343: PetscErrorCode MatShift_SeqSBAIJ(Mat Y,PetscScalar a)
    1344: {
    1346:   Mat_SeqSBAIJ    *aij = (Mat_SeqSBAIJ*)Y->data;

    1349:   if (!Y->preallocated || !aij->nz) {
    1350:     MatSeqSBAIJSetPreallocation(Y,Y->rmap->bs,1,NULL);
    1351:   }
    1352:   MatShift_Basic(Y,a);
    1353:   return(0);
    1354: }

    1356: /* -------------------------------------------------------------------*/
    1357: static struct _MatOps MatOps_Values = {MatSetValues_SeqSBAIJ,
    1358:                                        MatGetRow_SeqSBAIJ,
    1359:                                        MatRestoreRow_SeqSBAIJ,
    1360:                                        MatMult_SeqSBAIJ_N,
    1361:                                /*  4*/ MatMultAdd_SeqSBAIJ_N,
    1362:                                        MatMult_SeqSBAIJ_N,       /* transpose versions are same as non-transpose versions */
    1363:                                        MatMultAdd_SeqSBAIJ_N,
    1364:                                        NULL,
    1365:                                        NULL,
    1366:                                        NULL,
    1367:                                /* 10*/ NULL,
    1368:                                        NULL,
    1369:                                        MatCholeskyFactor_SeqSBAIJ,
    1370:                                        MatSOR_SeqSBAIJ,
    1371:                                        MatTranspose_SeqSBAIJ,
    1372:                                /* 15*/ MatGetInfo_SeqSBAIJ,
    1373:                                        MatEqual_SeqSBAIJ,
    1374:                                        MatGetDiagonal_SeqSBAIJ,
    1375:                                        MatDiagonalScale_SeqSBAIJ,
    1376:                                        MatNorm_SeqSBAIJ,
    1377:                                /* 20*/ NULL,
    1378:                                        MatAssemblyEnd_SeqSBAIJ,
    1379:                                        MatSetOption_SeqSBAIJ,
    1380:                                        MatZeroEntries_SeqSBAIJ,
    1381:                                /* 24*/ NULL,
    1382:                                        NULL,
    1383:                                        NULL,
    1384:                                        NULL,
    1385:                                        NULL,
    1386:                                /* 29*/ MatSetUp_SeqSBAIJ,
    1387:                                        NULL,
    1388:                                        NULL,
    1389:                                        NULL,
    1390:                                        NULL,
    1391:                                /* 34*/ MatDuplicate_SeqSBAIJ,
    1392:                                        NULL,
    1393:                                        NULL,
    1394:                                        NULL,
    1395:                                        MatICCFactor_SeqSBAIJ,
    1396:                                /* 39*/ MatAXPY_SeqSBAIJ,
    1397:                                        MatCreateSubMatrices_SeqSBAIJ,
    1398:                                        MatIncreaseOverlap_SeqSBAIJ,
    1399:                                        MatGetValues_SeqSBAIJ,
    1400:                                        MatCopy_SeqSBAIJ,
    1401:                                /* 44*/ NULL,
    1402:                                        MatScale_SeqSBAIJ,
    1403:                                        MatShift_SeqSBAIJ,
    1404:                                        NULL,
    1405:                                        MatZeroRowsColumns_SeqSBAIJ,
    1406:                                /* 49*/ NULL,
    1407:                                        MatGetRowIJ_SeqSBAIJ,
    1408:                                        MatRestoreRowIJ_SeqSBAIJ,
    1409:                                        NULL,
    1410:                                        NULL,
    1411:                                /* 54*/ NULL,
    1412:                                        NULL,
    1413:                                        NULL,
    1414:                                        NULL,
    1415:                                        MatSetValuesBlocked_SeqSBAIJ,
    1416:                                /* 59*/ MatCreateSubMatrix_SeqSBAIJ,
    1417:                                        NULL,
    1418:                                        NULL,
    1419:                                        NULL,
    1420:                                        NULL,
    1421:                                /* 64*/ NULL,
    1422:                                        NULL,
    1423:                                        NULL,
    1424:                                        NULL,
    1425:                                        NULL,
    1426:                                /* 69*/ MatGetRowMaxAbs_SeqSBAIJ,
    1427:                                        NULL,
    1428:                                        MatConvert_MPISBAIJ_Basic,
    1429:                                        NULL,
    1430:                                        NULL,
    1431:                                /* 74*/ NULL,
    1432:                                        NULL,
    1433:                                        NULL,
    1434:                                        NULL,
    1435:                                        NULL,
    1436:                                /* 79*/ NULL,
    1437:                                        NULL,
    1438:                                        NULL,
    1439:                                        MatGetInertia_SeqSBAIJ,
    1440:                                        MatLoad_SeqSBAIJ,
    1441:                                /* 84*/ MatIsSymmetric_SeqSBAIJ,
    1442:                                        MatIsHermitian_SeqSBAIJ,
    1443:                                        MatIsStructurallySymmetric_SeqSBAIJ,
    1444:                                        NULL,
    1445:                                        NULL,
    1446:                                /* 89*/ NULL,
    1447:                                        NULL,
    1448:                                        NULL,
    1449:                                        NULL,
    1450:                                        NULL,
    1451:                                /* 94*/ NULL,
    1452:                                        NULL,
    1453:                                        NULL,
    1454:                                        NULL,
    1455:                                        NULL,
    1456:                                /* 99*/ NULL,
    1457:                                        NULL,
    1458:                                        NULL,
    1459:                                        NULL,
    1460:                                        NULL,
    1461:                                /*104*/ NULL,
    1462:                                        MatRealPart_SeqSBAIJ,
    1463:                                        MatImaginaryPart_SeqSBAIJ,
    1464:                                        MatGetRowUpperTriangular_SeqSBAIJ,
    1465:                                        MatRestoreRowUpperTriangular_SeqSBAIJ,
    1466:                                /*109*/ NULL,
    1467:                                        NULL,
    1468:                                        NULL,
    1469:                                        NULL,
    1470:                                        MatMissingDiagonal_SeqSBAIJ,
    1471:                                /*114*/ NULL,
    1472:                                        NULL,
    1473:                                        NULL,
    1474:                                        NULL,
    1475:                                        NULL,
    1476:                                /*119*/ NULL,
    1477:                                        NULL,
    1478:                                        NULL,
    1479:                                        NULL,
    1480:                                        NULL,
    1481:                                /*124*/ NULL,
    1482:                                        NULL,
    1483:                                        NULL,
    1484:                                        NULL,
    1485:                                        NULL,
    1486:                                /*129*/ NULL,
    1487:                                        NULL,
    1488:                                        NULL,
    1489:                                        NULL,
    1490:                                        NULL,
    1491:                                /*134*/ NULL,
    1492:                                        NULL,
    1493:                                        NULL,
    1494:                                        NULL,
    1495:                                        NULL,
    1496:                                /*139*/ MatSetBlockSizes_Default,
    1497:                                        NULL,
    1498:                                        NULL,
    1499:                                        NULL,
    1500:                                        NULL,
    1501:                                 /*144*/MatCreateMPIMatConcatenateSeqMat_SeqSBAIJ
    1502: };

    1504: PetscErrorCode  MatStoreValues_SeqSBAIJ(Mat mat)
    1505: {
    1506:   Mat_SeqSBAIJ   *aij = (Mat_SeqSBAIJ*)mat->data;
    1507:   PetscInt       nz   = aij->i[mat->rmap->N]*mat->rmap->bs*aij->bs2;

    1511:   if (aij->nonew != 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ORDER,"Must call MatSetOption(A,MAT_NEW_NONZERO_LOCATIONS,PETSC_FALSE);first");

    1513:   /* allocate space for values if not already there */
    1514:   if (!aij->saved_values) {
    1515:     PetscMalloc1(nz+1,&aij->saved_values);
    1516:   }

    1518:   /* copy values over */
    1519:   PetscArraycpy(aij->saved_values,aij->a,nz);
    1520:   return(0);
    1521: }

    1523: PetscErrorCode  MatRetrieveValues_SeqSBAIJ(Mat mat)
    1524: {
    1525:   Mat_SeqSBAIJ   *aij = (Mat_SeqSBAIJ*)mat->data;
    1527:   PetscInt       nz = aij->i[mat->rmap->N]*mat->rmap->bs*aij->bs2;

    1530:   if (aij->nonew != 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ORDER,"Must call MatSetOption(A,MAT_NEW_NONZERO_LOCATIONS,PETSC_FALSE);first");
    1531:   if (!aij->saved_values) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ORDER,"Must call MatStoreValues(A);first");

    1533:   /* copy values over */
    1534:   PetscArraycpy(aij->a,aij->saved_values,nz);
    1535:   return(0);
    1536: }

    1538: static PetscErrorCode  MatSeqSBAIJSetPreallocation_SeqSBAIJ(Mat B,PetscInt bs,PetscInt nz,PetscInt *nnz)
    1539: {
    1540:   Mat_SeqSBAIJ   *b = (Mat_SeqSBAIJ*)B->data;
    1542:   PetscInt       i,mbs,nbs,bs2;
    1543:   PetscBool      skipallocation = PETSC_FALSE,flg = PETSC_FALSE,realalloc = PETSC_FALSE;

    1546:   if (nz >= 0 || nnz) realalloc = PETSC_TRUE;

    1548:   MatSetBlockSize(B,PetscAbs(bs));
    1549:   PetscLayoutSetUp(B->rmap);
    1550:   PetscLayoutSetUp(B->cmap);
    1551:   if (B->rmap->N > B->cmap->N) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"SEQSBAIJ matrix cannot have more rows %D than columns %D",B->rmap->N,B->cmap->N);
    1552:   PetscLayoutGetBlockSize(B->rmap,&bs);

    1554:   B->preallocated = PETSC_TRUE;

    1556:   mbs = B->rmap->N/bs;
    1557:   nbs = B->cmap->n/bs;
    1558:   bs2 = bs*bs;

    1560:   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");

    1562:   if (nz == MAT_SKIP_ALLOCATION) {
    1563:     skipallocation = PETSC_TRUE;
    1564:     nz             = 0;
    1565:   }

    1567:   if (nz == PETSC_DEFAULT || nz == PETSC_DECIDE) nz = 3;
    1568:   if (nz < 0) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"nz cannot be less than 0: value %D",nz);
    1569:   if (nnz) {
    1570:     for (i=0; i<mbs; i++) {
    1571:       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]);
    1572:       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);
    1573:     }
    1574:   }

    1576:   B->ops->mult             = MatMult_SeqSBAIJ_N;
    1577:   B->ops->multadd          = MatMultAdd_SeqSBAIJ_N;
    1578:   B->ops->multtranspose    = MatMult_SeqSBAIJ_N;
    1579:   B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_N;

    1581:   PetscOptionsGetBool(((PetscObject)B)->options,((PetscObject)B)->prefix,"-mat_no_unroll",&flg,NULL);
    1582:   if (!flg) {
    1583:     switch (bs) {
    1584:     case 1:
    1585:       B->ops->mult             = MatMult_SeqSBAIJ_1;
    1586:       B->ops->multadd          = MatMultAdd_SeqSBAIJ_1;
    1587:       B->ops->multtranspose    = MatMult_SeqSBAIJ_1;
    1588:       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_1;
    1589:       break;
    1590:     case 2:
    1591:       B->ops->mult             = MatMult_SeqSBAIJ_2;
    1592:       B->ops->multadd          = MatMultAdd_SeqSBAIJ_2;
    1593:       B->ops->multtranspose    = MatMult_SeqSBAIJ_2;
    1594:       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_2;
    1595:       break;
    1596:     case 3:
    1597:       B->ops->mult             = MatMult_SeqSBAIJ_3;
    1598:       B->ops->multadd          = MatMultAdd_SeqSBAIJ_3;
    1599:       B->ops->multtranspose    = MatMult_SeqSBAIJ_3;
    1600:       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_3;
    1601:       break;
    1602:     case 4:
    1603:       B->ops->mult             = MatMult_SeqSBAIJ_4;
    1604:       B->ops->multadd          = MatMultAdd_SeqSBAIJ_4;
    1605:       B->ops->multtranspose    = MatMult_SeqSBAIJ_4;
    1606:       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_4;
    1607:       break;
    1608:     case 5:
    1609:       B->ops->mult             = MatMult_SeqSBAIJ_5;
    1610:       B->ops->multadd          = MatMultAdd_SeqSBAIJ_5;
    1611:       B->ops->multtranspose    = MatMult_SeqSBAIJ_5;
    1612:       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_5;
    1613:       break;
    1614:     case 6:
    1615:       B->ops->mult             = MatMult_SeqSBAIJ_6;
    1616:       B->ops->multadd          = MatMultAdd_SeqSBAIJ_6;
    1617:       B->ops->multtranspose    = MatMult_SeqSBAIJ_6;
    1618:       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_6;
    1619:       break;
    1620:     case 7:
    1621:       B->ops->mult             = MatMult_SeqSBAIJ_7;
    1622:       B->ops->multadd          = MatMultAdd_SeqSBAIJ_7;
    1623:       B->ops->multtranspose    = MatMult_SeqSBAIJ_7;
    1624:       B->ops->multtransposeadd = MatMultAdd_SeqSBAIJ_7;
    1625:       break;
    1626:     }
    1627:   }

    1629:   b->mbs = mbs;
    1630:   b->nbs = nbs;
    1631:   if (!skipallocation) {
    1632:     if (!b->imax) {
    1633:       PetscMalloc2(mbs,&b->imax,mbs,&b->ilen);

    1635:       b->free_imax_ilen = PETSC_TRUE;

    1637:       PetscLogObjectMemory((PetscObject)B,2*mbs*sizeof(PetscInt));
    1638:     }
    1639:     if (!nnz) {
    1640:       if (nz == PETSC_DEFAULT || nz == PETSC_DECIDE) nz = 5;
    1641:       else if (nz <= 0) nz = 1;
    1642:       nz = PetscMin(nbs,nz);
    1643:       for (i=0; i<mbs; i++) b->imax[i] = nz;
    1644:       PetscIntMultError(nz,mbs,&nz);
    1645:     } else {
    1646:       PetscInt64 nz64 = 0;
    1647:       for (i=0; i<mbs; i++) {b->imax[i] = nnz[i]; nz64 += nnz[i];}
    1648:       PetscIntCast(nz64,&nz);
    1649:     }
    1650:     /* b->ilen will count nonzeros in each block row so far. */
    1651:     for (i=0; i<mbs; i++) b->ilen[i] = 0;
    1652:     /* nz=(nz+mbs)/2; */ /* total diagonal and superdiagonal nonzero blocks */

    1654:     /* allocate the matrix space */
    1655:     MatSeqXAIJFreeAIJ(B,&b->a,&b->j,&b->i);
    1656:     PetscMalloc3(bs2*nz,&b->a,nz,&b->j,B->rmap->N+1,&b->i);
    1657:     PetscLogObjectMemory((PetscObject)B,(B->rmap->N+1)*sizeof(PetscInt)+nz*(bs2*sizeof(PetscScalar)+sizeof(PetscInt)));
    1658:     PetscArrayzero(b->a,nz*bs2);
    1659:     PetscArrayzero(b->j,nz);

    1661:     b->singlemalloc = PETSC_TRUE;

    1663:     /* pointer to beginning of each row */
    1664:     b->i[0] = 0;
    1665:     for (i=1; i<mbs+1; i++) b->i[i] = b->i[i-1] + b->imax[i-1];

    1667:     b->free_a  = PETSC_TRUE;
    1668:     b->free_ij = PETSC_TRUE;
    1669:   } else {
    1670:     b->free_a  = PETSC_FALSE;
    1671:     b->free_ij = PETSC_FALSE;
    1672:   }

    1674:   b->bs2     = bs2;
    1675:   b->nz      = 0;
    1676:   b->maxnz   = nz;
    1677:   b->inew    = NULL;
    1678:   b->jnew    = NULL;
    1679:   b->anew    = NULL;
    1680:   b->a2anew  = NULL;
    1681:   b->permute = PETSC_FALSE;

    1683:   B->was_assembled = PETSC_FALSE;
    1684:   B->assembled     = PETSC_FALSE;
    1685:   if (realalloc) {MatSetOption(B,MAT_NEW_NONZERO_ALLOCATION_ERR,PETSC_TRUE);}
    1686:   return(0);
    1687: }

    1689: PetscErrorCode MatSeqSBAIJSetPreallocationCSR_SeqSBAIJ(Mat B,PetscInt bs,const PetscInt ii[],const PetscInt jj[], const PetscScalar V[])
    1690: {
    1691:   PetscInt       i,j,m,nz,anz, nz_max=0,*nnz;
    1692:   PetscScalar    *values=NULL;
    1693:   PetscBool      roworiented = ((Mat_SeqSBAIJ*)B->data)->roworiented;

    1697:   if (bs < 1) SETERRQ1(PetscObjectComm((PetscObject)B),PETSC_ERR_ARG_OUTOFRANGE,"Invalid block size specified, must be positive but it is %D",bs);
    1698:   PetscLayoutSetBlockSize(B->rmap,bs);
    1699:   PetscLayoutSetBlockSize(B->cmap,bs);
    1700:   PetscLayoutSetUp(B->rmap);
    1701:   PetscLayoutSetUp(B->cmap);
    1702:   PetscLayoutGetBlockSize(B->rmap,&bs);
    1703:   m      = B->rmap->n/bs;

    1705:   if (ii[0]) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"ii[0] must be 0 but it is %D",ii[0]);
    1706:   PetscMalloc1(m+1,&nnz);
    1707:   for (i=0; i<m; i++) {
    1708:     nz = ii[i+1] - ii[i];
    1709:     if (nz < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Row %D has a negative number of columns %D",i,nz);
    1710:     anz = 0;
    1711:     for (j=0; j<nz; j++) {
    1712:       /* count only values on the diagonal or above */
    1713:       if (jj[ii[i] + j] >= i) {
    1714:         anz = nz - j;
    1715:         break;
    1716:       }
    1717:     }
    1718:     nz_max = PetscMax(nz_max,anz);
    1719:     nnz[i] = anz;
    1720:   }
    1721:   MatSeqSBAIJSetPreallocation(B,bs,0,nnz);
    1722:   PetscFree(nnz);

    1724:   values = (PetscScalar*)V;
    1725:   if (!values) {
    1726:     PetscCalloc1(bs*bs*nz_max,&values);
    1727:   }
    1728:   for (i=0; i<m; i++) {
    1729:     PetscInt          ncols  = ii[i+1] - ii[i];
    1730:     const PetscInt    *icols = jj + ii[i];
    1731:     if (!roworiented || bs == 1) {
    1732:       const PetscScalar *svals = values + (V ? (bs*bs*ii[i]) : 0);
    1733:       MatSetValuesBlocked_SeqSBAIJ(B,1,&i,ncols,icols,svals,INSERT_VALUES);
    1734:     } else {
    1735:       for (j=0; j<ncols; j++) {
    1736:         const PetscScalar *svals = values + (V ? (bs*bs*(ii[i]+j)) : 0);
    1737:         MatSetValuesBlocked_SeqSBAIJ(B,1,&i,1,&icols[j],svals,INSERT_VALUES);
    1738:       }
    1739:     }
    1740:   }
    1741:   if (!V) { PetscFree(values); }
    1742:   MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);
    1743:   MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);
    1744:   MatSetOption(B,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);
    1745:   return(0);
    1746: }

    1748: /*
    1749:    This is used to set the numeric factorization for both Cholesky and ICC symbolic factorization
    1750: */
    1751: PetscErrorCode MatSeqSBAIJSetNumericFactorization_inplace(Mat B,PetscBool natural)
    1752: {
    1754:   PetscBool      flg = PETSC_FALSE;
    1755:   PetscInt       bs  = B->rmap->bs;

    1758:   PetscOptionsGetBool(((PetscObject)B)->options,((PetscObject)B)->prefix,"-mat_no_unroll",&flg,NULL);
    1759:   if (flg) bs = 8;

    1761:   if (!natural) {
    1762:     switch (bs) {
    1763:     case 1:
    1764:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_1_inplace;
    1765:       break;
    1766:     case 2:
    1767:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_2;
    1768:       break;
    1769:     case 3:
    1770:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_3;
    1771:       break;
    1772:     case 4:
    1773:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_4;
    1774:       break;
    1775:     case 5:
    1776:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_5;
    1777:       break;
    1778:     case 6:
    1779:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_6;
    1780:       break;
    1781:     case 7:
    1782:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_7;
    1783:       break;
    1784:     default:
    1785:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_N;
    1786:       break;
    1787:     }
    1788:   } else {
    1789:     switch (bs) {
    1790:     case 1:
    1791:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_1_NaturalOrdering_inplace;
    1792:       break;
    1793:     case 2:
    1794:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_2_NaturalOrdering;
    1795:       break;
    1796:     case 3:
    1797:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_3_NaturalOrdering;
    1798:       break;
    1799:     case 4:
    1800:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_4_NaturalOrdering;
    1801:       break;
    1802:     case 5:
    1803:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_5_NaturalOrdering;
    1804:       break;
    1805:     case 6:
    1806:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_6_NaturalOrdering;
    1807:       break;
    1808:     case 7:
    1809:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_7_NaturalOrdering;
    1810:       break;
    1811:     default:
    1812:       B->ops->choleskyfactornumeric = MatCholeskyFactorNumeric_SeqSBAIJ_N_NaturalOrdering;
    1813:       break;
    1814:     }
    1815:   }
    1816:   return(0);
    1817: }

    1819: PETSC_INTERN PetscErrorCode MatConvert_SeqSBAIJ_SeqAIJ(Mat, MatType,MatReuse,Mat*);
    1820: PETSC_INTERN PetscErrorCode MatConvert_SeqSBAIJ_SeqBAIJ(Mat, MatType,MatReuse,Mat*);

    1822: PETSC_INTERN PetscErrorCode MatGetFactor_seqsbaij_petsc(Mat A,MatFactorType ftype,Mat *B)
    1823: {
    1824:   PetscInt       n = A->rmap->n;

    1828: #if defined(PETSC_USE_COMPLEX)
    1829:   if (A->hermitian && !A->symmetric && (ftype == MAT_FACTOR_CHOLESKY||ftype == MAT_FACTOR_ICC)) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Hermitian CHOLESKY or ICC Factor is not supported");
    1830: #endif

    1832:   MatCreate(PetscObjectComm((PetscObject)A),B);
    1833:   MatSetSizes(*B,n,n,n,n);
    1834:   if (ftype == MAT_FACTOR_CHOLESKY || ftype == MAT_FACTOR_ICC) {
    1835:     MatSetType(*B,MATSEQSBAIJ);
    1836:     MatSeqSBAIJSetPreallocation(*B,A->rmap->bs,MAT_SKIP_ALLOCATION,NULL);

    1838:     (*B)->ops->choleskyfactorsymbolic = MatCholeskyFactorSymbolic_SeqSBAIJ;
    1839:     (*B)->ops->iccfactorsymbolic      = MatICCFactorSymbolic_SeqSBAIJ;
    1840:   } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Factor type not supported");

    1842:   (*B)->factortype = ftype;
    1843:   (*B)->useordering = PETSC_TRUE;
    1844:   PetscFree((*B)->solvertype);
    1845:   PetscStrallocpy(MATSOLVERPETSC,&(*B)->solvertype);
    1846:   return(0);
    1847: }

    1849: /*@C
    1850:    MatSeqSBAIJGetArray - gives access to the array where the data for a MATSEQSBAIJ matrix is stored

    1852:    Not Collective

    1854:    Input Parameter:
    1855: .  mat - a MATSEQSBAIJ matrix

    1857:    Output Parameter:
    1858: .   array - pointer to the data

    1860:    Level: intermediate

    1862: .seealso: MatSeqSBAIJRestoreArray(), MatSeqAIJGetArray(), MatSeqAIJRestoreArray()
    1863: @*/
    1864: PetscErrorCode  MatSeqSBAIJGetArray(Mat A,PetscScalar **array)
    1865: {

    1869:   PetscUseMethod(A,"MatSeqSBAIJGetArray_C",(Mat,PetscScalar**),(A,array));
    1870:   return(0);
    1871: }

    1873: /*@C
    1874:    MatSeqSBAIJRestoreArray - returns access to the array where the data for a MATSEQSBAIJ matrix is stored obtained by MatSeqSBAIJGetArray()

    1876:    Not Collective

    1878:    Input Parameters:
    1879: +  mat - a MATSEQSBAIJ matrix
    1880: -  array - pointer to the data

    1882:    Level: intermediate

    1884: .seealso: MatSeqSBAIJGetArray(), MatSeqAIJGetArray(), MatSeqAIJRestoreArray()
    1885: @*/
    1886: PetscErrorCode  MatSeqSBAIJRestoreArray(Mat A,PetscScalar **array)
    1887: {

    1891:   PetscUseMethod(A,"MatSeqSBAIJRestoreArray_C",(Mat,PetscScalar**),(A,array));
    1892:   return(0);
    1893: }

    1895: /*MC
    1896:   MATSEQSBAIJ - MATSEQSBAIJ = "seqsbaij" - A matrix type to be used for sequential symmetric block sparse matrices,
    1897:   based on block compressed sparse row format.  Only the upper triangular portion of the matrix is stored.

    1899:   For complex numbers by default this matrix is symmetric, NOT Hermitian symmetric. To make it Hermitian symmetric you
    1900:   can call MatSetOption(Mat, MAT_HERMITIAN).

    1902:   Options Database Keys:
    1903:   . -mat_type seqsbaij - sets the matrix type to "seqsbaij" during a call to MatSetFromOptions()

    1905:   Notes:
    1906:     By default if you insert values into the lower triangular part of the matrix they are simply ignored (since they are not
    1907:      stored and it is assumed they symmetric to the upper triangular). If you call MatSetOption(Mat,MAT_IGNORE_LOWER_TRIANGULAR,PETSC_FALSE) or use
    1908:      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.

    1910:     The number of rows in the matrix must be less than or equal to the number of columns

    1912:   Level: beginner

    1914:   .seealso: MatCreateSeqSBAIJ(), MatType, MATMPISBAIJ
    1915: M*/
    1916: PETSC_EXTERN PetscErrorCode MatCreate_SeqSBAIJ(Mat B)
    1917: {
    1918:   Mat_SeqSBAIJ   *b;
    1920:   PetscMPIInt    size;
    1921:   PetscBool      no_unroll = PETSC_FALSE,no_inode = PETSC_FALSE;

    1924:   MPI_Comm_size(PetscObjectComm((PetscObject)B),&size);
    1925:   if (size > 1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Comm must be of size 1");

    1927:   PetscNewLog(B,&b);
    1928:   B->data = (void*)b;
    1929:   PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));

    1931:   B->ops->destroy    = MatDestroy_SeqSBAIJ;
    1932:   B->ops->view       = MatView_SeqSBAIJ;
    1933:   b->row             = NULL;
    1934:   b->icol            = NULL;
    1935:   b->reallocs        = 0;
    1936:   b->saved_values    = NULL;
    1937:   b->inode.limit     = 5;
    1938:   b->inode.max_limit = 5;

    1940:   b->roworiented        = PETSC_TRUE;
    1941:   b->nonew              = 0;
    1942:   b->diag               = NULL;
    1943:   b->solve_work         = NULL;
    1944:   b->mult_work          = NULL;
    1945:   B->spptr              = NULL;
    1946:   B->info.nz_unneeded   = (PetscReal)b->maxnz*b->bs2;
    1947:   b->keepnonzeropattern = PETSC_FALSE;

    1949:   b->inew    = NULL;
    1950:   b->jnew    = NULL;
    1951:   b->anew    = NULL;
    1952:   b->a2anew  = NULL;
    1953:   b->permute = PETSC_FALSE;

    1955:   b->ignore_ltriangular = PETSC_TRUE;

    1957:   PetscOptionsGetBool(((PetscObject)B)->options,((PetscObject)B)->prefix,"-mat_ignore_lower_triangular",&b->ignore_ltriangular,NULL);

    1959:   b->getrow_utriangular = PETSC_FALSE;

    1961:   PetscOptionsGetBool(((PetscObject)B)->options,((PetscObject)B)->prefix,"-mat_getrow_uppertriangular",&b->getrow_utriangular,NULL);

    1963:   PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJGetArray_C",MatSeqSBAIJGetArray_SeqSBAIJ);
    1964:   PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJRestoreArray_C",MatSeqSBAIJRestoreArray_SeqSBAIJ);
    1965:   PetscObjectComposeFunction((PetscObject)B,"MatStoreValues_C",MatStoreValues_SeqSBAIJ);
    1966:   PetscObjectComposeFunction((PetscObject)B,"MatRetrieveValues_C",MatRetrieveValues_SeqSBAIJ);
    1967:   PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJSetColumnIndices_C",MatSeqSBAIJSetColumnIndices_SeqSBAIJ);
    1968:   PetscObjectComposeFunction((PetscObject)B,"MatConvert_seqsbaij_seqaij_C",MatConvert_SeqSBAIJ_SeqAIJ);
    1969:   PetscObjectComposeFunction((PetscObject)B,"MatConvert_seqsbaij_seqbaij_C",MatConvert_SeqSBAIJ_SeqBAIJ);
    1970:   PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJSetPreallocation_C",MatSeqSBAIJSetPreallocation_SeqSBAIJ);
    1971:   PetscObjectComposeFunction((PetscObject)B,"MatSeqSBAIJSetPreallocationCSR_C",MatSeqSBAIJSetPreallocationCSR_SeqSBAIJ);
    1972: #if defined(PETSC_HAVE_ELEMENTAL)
    1973:   PetscObjectComposeFunction((PetscObject)B,"MatConvert_seqsbaij_elemental_C",MatConvert_SeqSBAIJ_Elemental);
    1974: #endif
    1975: #if defined(PETSC_HAVE_SCALAPACK)
    1976:   PetscObjectComposeFunction((PetscObject)B,"MatConvert_seqsbaij_scalapack_C",MatConvert_SBAIJ_ScaLAPACK);
    1977: #endif

    1979:   B->symmetric                  = PETSC_TRUE;
    1980:   B->structurally_symmetric     = PETSC_TRUE;
    1981:   B->symmetric_set              = PETSC_TRUE;
    1982:   B->structurally_symmetric_set = PETSC_TRUE;
    1983:   B->symmetric_eternal          = PETSC_TRUE;
    1984: #if defined(PETSC_USE_COMPLEX)
    1985:   B->hermitian                  = PETSC_FALSE;
    1986:   B->hermitian_set              = PETSC_FALSE;
    1987: #else
    1988:   B->hermitian                  = PETSC_TRUE;
    1989:   B->hermitian_set              = PETSC_TRUE;
    1990: #endif

    1992:   PetscObjectChangeTypeName((PetscObject)B,MATSEQSBAIJ);

    1994:   PetscOptionsBegin(PetscObjectComm((PetscObject)B),((PetscObject)B)->prefix,"Options for SEQSBAIJ matrix","Mat");
    1995:   PetscOptionsBool("-mat_no_unroll","Do not optimize for inodes (slower)",NULL,no_unroll,&no_unroll,NULL);
    1996:   if (no_unroll) {
    1997:     PetscInfo(B,"Not using Inode routines due to -mat_no_unroll\n");
    1998:   }
    1999:   PetscOptionsBool("-mat_no_inode","Do not optimize for inodes (slower)",NULL,no_inode,&no_inode,NULL);
    2000:   if (no_inode) {
    2001:     PetscInfo(B,"Not using Inode routines due to -mat_no_inode\n");
    2002:   }
    2003:   PetscOptionsInt("-mat_inode_limit","Do not use inodes larger then this value",NULL,b->inode.limit,&b->inode.limit,NULL);
    2004:   PetscOptionsEnd();
    2005:   b->inode.use = (PetscBool)(!(no_unroll || no_inode));
    2006:   if (b->inode.limit > b->inode.max_limit) b->inode.limit = b->inode.max_limit;
    2007:   return(0);
    2008: }

    2010: /*@C
    2011:    MatSeqSBAIJSetPreallocation - Creates a sparse symmetric matrix in block AIJ (block
    2012:    compressed row) format.  For good matrix assembly performance the
    2013:    user should preallocate the matrix storage by setting the parameter nz
    2014:    (or the array nnz).  By setting these parameters accurately, performance
    2015:    during matrix assembly can be increased by more than a factor of 50.

    2017:    Collective on Mat

    2019:    Input Parameters:
    2020: +  B - the symmetric matrix
    2021: .  bs - size of block, the blocks are ALWAYS square. One can use MatSetBlockSizes() to set a different row and column blocksize but the row
    2022:           blocksize always defines the size of the blocks. The column blocksize sets the blocksize of the vectors obtained with MatCreateVecs()
    2023: .  nz - number of block nonzeros per block row (same for all rows)
    2024: -  nnz - array containing the number of block nonzeros in the upper triangular plus
    2025:          diagonal portion of each block (possibly different for each block row) or NULL

    2027:    Options Database Keys:
    2028: +   -mat_no_unroll - uses code that does not unroll the loops in the
    2029:                      block calculations (much slower)
    2030: -   -mat_block_size - size of the blocks to use (only works if a negative bs is passed in

    2032:    Level: intermediate

    2034:    Notes:
    2035:    Specify the preallocated storage with either nz or nnz (not both).
    2036:    Set nz=PETSC_DEFAULT and nnz=NULL for PETSc to control dynamic memory
    2037:    allocation.  See Users-Manual: ch_mat for details.

    2039:    You can call MatGetInfo() to get information on how effective the preallocation was;
    2040:    for example the fields mallocs,nz_allocated,nz_used,nz_unneeded;
    2041:    You can also run with the option -info and look for messages with the string
    2042:    malloc in them to see if additional memory allocation was needed.

    2044:    If the nnz parameter is given then the nz parameter is ignored

    2047: .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateSBAIJ()
    2048: @*/
    2049: PetscErrorCode  MatSeqSBAIJSetPreallocation(Mat B,PetscInt bs,PetscInt nz,const PetscInt nnz[])
    2050: {

    2057:   PetscTryMethod(B,"MatSeqSBAIJSetPreallocation_C",(Mat,PetscInt,PetscInt,const PetscInt[]),(B,bs,nz,nnz));
    2058:   return(0);
    2059: }

    2061: /*@C
    2062:    MatSeqSBAIJSetPreallocationCSR - Creates a sparse parallel matrix in SBAIJ format using the given nonzero structure and (optional) numerical values

    2064:    Input Parameters:
    2065: +  B - the matrix
    2066: .  bs - size of block, the blocks are ALWAYS square.
    2067: .  i - the indices into j for the start of each local row (starts with zero)
    2068: .  j - the column indices for each local row (starts with zero) these must be sorted for each row
    2069: -  v - optional values in the matrix

    2071:    Level: advanced

    2073:    Notes:
    2074:    The order of the entries in values is specified by the MatOption MAT_ROW_ORIENTED.  For example, C programs
    2075:    may want to use the default MAT_ROW_ORIENTED=PETSC_TRUE and use an array v[nnz][bs][bs] where the second index is
    2076:    over rows within a block and the last index is over columns within a block row.  Fortran programs will likely set
    2077:    MAT_ROW_ORIENTED=PETSC_FALSE and use a Fortran array v(bs,bs,nnz) in which the first index is over rows within a
    2078:    block column and the second index is over columns within a block.

    2080:    Any entries below the diagonal are ignored

    2082:    Though this routine has Preallocation() in the name it also sets the exact nonzero locations of the matrix entries
    2083:    and usually the numerical values as well

    2085: .seealso: MatCreate(), MatCreateSeqSBAIJ(), MatSetValuesBlocked(), MatSeqSBAIJSetPreallocation(), MATSEQSBAIJ
    2086: @*/
    2087: PetscErrorCode MatSeqSBAIJSetPreallocationCSR(Mat B,PetscInt bs,const PetscInt i[],const PetscInt j[], const PetscScalar v[])
    2088: {

    2095:   PetscTryMethod(B,"MatSeqSBAIJSetPreallocationCSR_C",(Mat,PetscInt,const PetscInt[],const PetscInt[],const PetscScalar[]),(B,bs,i,j,v));
    2096:   return(0);
    2097: }

    2099: /*@C
    2100:    MatCreateSeqSBAIJ - Creates a sparse symmetric matrix in block AIJ (block
    2101:    compressed row) format.  For good matrix assembly performance the
    2102:    user should preallocate the matrix storage by setting the parameter nz
    2103:    (or the array nnz).  By setting these parameters accurately, performance
    2104:    during matrix assembly can be increased by more than a factor of 50.

    2106:    Collective

    2108:    Input Parameters:
    2109: +  comm - MPI communicator, set to PETSC_COMM_SELF
    2110: .  bs - size of block, the blocks are ALWAYS square. One can use MatSetBlockSizes() to set a different row and column blocksize but the row
    2111:           blocksize always defines the size of the blocks. The column blocksize sets the blocksize of the vectors obtained with MatCreateVecs()
    2112: .  m - number of rows, or number of columns
    2113: .  nz - number of block nonzeros per block row (same for all rows)
    2114: -  nnz - array containing the number of block nonzeros in the upper triangular plus
    2115:          diagonal portion of each block (possibly different for each block row) or NULL

    2117:    Output Parameter:
    2118: .  A - the symmetric matrix

    2120:    Options Database Keys:
    2121: +   -mat_no_unroll - uses code that does not unroll the loops in the
    2122:                      block calculations (much slower)
    2123: -   -mat_block_size - size of the blocks to use

    2125:    Level: intermediate

    2127:    It is recommended that one use the MatCreate(), MatSetType() and/or MatSetFromOptions(),
    2128:    MatXXXXSetPreallocation() paradigm instead of this routine directly.
    2129:    [MatXXXXSetPreallocation() is, for example, MatSeqAIJSetPreallocation]

    2131:    Notes:
    2132:    The number of rows and columns must be divisible by blocksize.
    2133:    This matrix type does not support complex Hermitian operation.

    2135:    Specify the preallocated storage with either nz or nnz (not both).
    2136:    Set nz=PETSC_DEFAULT and nnz=NULL for PETSc to control dynamic memory
    2137:    allocation.  See Users-Manual: ch_mat for details.

    2139:    If the nnz parameter is given then the nz parameter is ignored

    2141: .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateSBAIJ()
    2142: @*/
    2143: PetscErrorCode  MatCreateSeqSBAIJ(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt nz,const PetscInt nnz[],Mat *A)
    2144: {

    2148:   MatCreate(comm,A);
    2149:   MatSetSizes(*A,m,n,m,n);
    2150:   MatSetType(*A,MATSEQSBAIJ);
    2151:   MatSeqSBAIJSetPreallocation(*A,bs,nz,(PetscInt*)nnz);
    2152:   return(0);
    2153: }

    2155: PetscErrorCode MatDuplicate_SeqSBAIJ(Mat A,MatDuplicateOption cpvalues,Mat *B)
    2156: {
    2157:   Mat            C;
    2158:   Mat_SeqSBAIJ   *c,*a = (Mat_SeqSBAIJ*)A->data;
    2160:   PetscInt       i,mbs = a->mbs,nz = a->nz,bs2 =a->bs2;

    2163:   if (a->i[mbs] != nz) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Corrupt matrix");

    2165:   *B   = NULL;
    2166:   MatCreate(PetscObjectComm((PetscObject)A),&C);
    2167:   MatSetSizes(C,A->rmap->N,A->cmap->n,A->rmap->N,A->cmap->n);
    2168:   MatSetBlockSizesFromMats(C,A,A);
    2169:   MatSetType(C,MATSEQSBAIJ);
    2170:   c    = (Mat_SeqSBAIJ*)C->data;

    2172:   C->preallocated       = PETSC_TRUE;
    2173:   C->factortype         = A->factortype;
    2174:   c->row                = NULL;
    2175:   c->icol               = NULL;
    2176:   c->saved_values       = NULL;
    2177:   c->keepnonzeropattern = a->keepnonzeropattern;
    2178:   C->assembled          = PETSC_TRUE;

    2180:   PetscLayoutReference(A->rmap,&C->rmap);
    2181:   PetscLayoutReference(A->cmap,&C->cmap);
    2182:   c->bs2 = a->bs2;
    2183:   c->mbs = a->mbs;
    2184:   c->nbs = a->nbs;

    2186:   if (cpvalues == MAT_SHARE_NONZERO_PATTERN) {
    2187:     c->imax           = a->imax;
    2188:     c->ilen           = a->ilen;
    2189:     c->free_imax_ilen = PETSC_FALSE;
    2190:   } else {
    2191:     PetscMalloc2((mbs+1),&c->imax,(mbs+1),&c->ilen);
    2192:     PetscLogObjectMemory((PetscObject)C,2*(mbs+1)*sizeof(PetscInt));
    2193:     for (i=0; i<mbs; i++) {
    2194:       c->imax[i] = a->imax[i];
    2195:       c->ilen[i] = a->ilen[i];
    2196:     }
    2197:     c->free_imax_ilen = PETSC_TRUE;
    2198:   }

    2200:   /* allocate the matrix space */
    2201:   if (cpvalues == MAT_SHARE_NONZERO_PATTERN) {
    2202:     PetscMalloc1(bs2*nz,&c->a);
    2203:     PetscLogObjectMemory((PetscObject)C,nz*bs2*sizeof(MatScalar));
    2204:     c->i            = a->i;
    2205:     c->j            = a->j;
    2206:     c->singlemalloc = PETSC_FALSE;
    2207:     c->free_a       = PETSC_TRUE;
    2208:     c->free_ij      = PETSC_FALSE;
    2209:     c->parent       = A;
    2210:     PetscObjectReference((PetscObject)A);
    2211:     MatSetOption(A,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);
    2212:     MatSetOption(C,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE);
    2213:   } else {
    2214:     PetscMalloc3(bs2*nz,&c->a,nz,&c->j,mbs+1,&c->i);
    2215:     PetscArraycpy(c->i,a->i,mbs+1);
    2216:     PetscLogObjectMemory((PetscObject)C,(mbs+1)*sizeof(PetscInt) + nz*(bs2*sizeof(MatScalar) + sizeof(PetscInt)));
    2217:     c->singlemalloc = PETSC_TRUE;
    2218:     c->free_a       = PETSC_TRUE;
    2219:     c->free_ij      = PETSC_TRUE;
    2220:   }
    2221:   if (mbs > 0) {
    2222:     if (cpvalues != MAT_SHARE_NONZERO_PATTERN) {
    2223:       PetscArraycpy(c->j,a->j,nz);
    2224:     }
    2225:     if (cpvalues == MAT_COPY_VALUES) {
    2226:       PetscArraycpy(c->a,a->a,bs2*nz);
    2227:     } else {
    2228:       PetscArrayzero(c->a,bs2*nz);
    2229:     }
    2230:     if (a->jshort) {
    2231:       /* cannot share jshort, it is reallocated in MatAssemblyEnd_SeqSBAIJ() */
    2232:       /* if the parent matrix is reassembled, this child matrix will never notice */
    2233:       PetscMalloc1(nz,&c->jshort);
    2234:       PetscLogObjectMemory((PetscObject)C,nz*sizeof(unsigned short));
    2235:       PetscArraycpy(c->jshort,a->jshort,nz);

    2237:       c->free_jshort = PETSC_TRUE;
    2238:     }
    2239:   }

    2241:   c->roworiented = a->roworiented;
    2242:   c->nonew       = a->nonew;

    2244:   if (a->diag) {
    2245:     if (cpvalues == MAT_SHARE_NONZERO_PATTERN) {
    2246:       c->diag      = a->diag;
    2247:       c->free_diag = PETSC_FALSE;
    2248:     } else {
    2249:       PetscMalloc1(mbs,&c->diag);
    2250:       PetscLogObjectMemory((PetscObject)C,mbs*sizeof(PetscInt));
    2251:       for (i=0; i<mbs; i++) c->diag[i] = a->diag[i];
    2252:       c->free_diag = PETSC_TRUE;
    2253:     }
    2254:   }
    2255:   c->nz         = a->nz;
    2256:   c->maxnz      = a->nz; /* Since we allocate exactly the right amount */
    2257:   c->solve_work = NULL;
    2258:   c->mult_work  = NULL;

    2260:   *B   = C;
    2261:   PetscFunctionListDuplicate(((PetscObject)A)->qlist,&((PetscObject)C)->qlist);
    2262:   return(0);
    2263: }

    2265: /* Used for both SeqBAIJ and SeqSBAIJ matrices */
    2266: #define MatLoad_SeqSBAIJ_Binary MatLoad_SeqBAIJ_Binary

    2268: PetscErrorCode MatLoad_SeqSBAIJ(Mat mat,PetscViewer viewer)
    2269: {
    2271:   PetscBool      isbinary;

    2274:   PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERBINARY,&isbinary);
    2275:   if (!isbinary) SETERRQ2(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Viewer type %s not yet supported for reading %s matrices",((PetscObject)viewer)->type_name,((PetscObject)mat)->type_name);
    2276:   MatLoad_SeqSBAIJ_Binary(mat,viewer);
    2277:   return(0);
    2278: }

    2280: /*@
    2281:      MatCreateSeqSBAIJWithArrays - Creates an sequential SBAIJ matrix using matrix elements
    2282:               (upper triangular entries in CSR format) provided by the user.

    2284:      Collective

    2286:    Input Parameters:
    2287: +  comm - must be an MPI communicator of size 1
    2288: .  bs - size of block
    2289: .  m - number of rows
    2290: .  n - number of columns
    2291: .  i - row indices; that is i[0] = 0, i[row] = i[row-1] + number of block elements in that row block row of the matrix
    2292: .  j - column indices
    2293: -  a - matrix values

    2295:    Output Parameter:
    2296: .  mat - the matrix

    2298:    Level: advanced

    2300:    Notes:
    2301:        The i, j, and a arrays are not copied by this routine, the user must free these arrays
    2302:     once the matrix is destroyed

    2304:        You cannot set new nonzero locations into this matrix, that will generate an error.

    2306:        The i and j indices are 0 based

    2308:        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
    2309:        it is the regular CSR format excluding the lower triangular elements.

    2311: .seealso: MatCreate(), MatCreateSBAIJ(), MatCreateSeqSBAIJ()

    2313: @*/
    2314: PetscErrorCode  MatCreateSeqSBAIJWithArrays(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt i[],PetscInt j[],PetscScalar a[],Mat *mat)
    2315: {
    2317:   PetscInt       ii;
    2318:   Mat_SeqSBAIJ   *sbaij;

    2321:   if (bs != 1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"block size %D > 1 is not supported yet",bs);
    2322:   if (m > 0 && i[0]) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0");

    2324:   MatCreate(comm,mat);
    2325:   MatSetSizes(*mat,m,n,m,n);
    2326:   MatSetType(*mat,MATSEQSBAIJ);
    2327:   MatSeqSBAIJSetPreallocation(*mat,bs,MAT_SKIP_ALLOCATION,NULL);
    2328:   sbaij = (Mat_SeqSBAIJ*)(*mat)->data;
    2329:   PetscMalloc2(m,&sbaij->imax,m,&sbaij->ilen);
    2330:   PetscLogObjectMemory((PetscObject)*mat,2*m*sizeof(PetscInt));

    2332:   sbaij->i = i;
    2333:   sbaij->j = j;
    2334:   sbaij->a = a;

    2336:   sbaij->singlemalloc   = PETSC_FALSE;
    2337:   sbaij->nonew          = -1;             /*this indicates that inserting a new value in the matrix that generates a new nonzero is an error*/
    2338:   sbaij->free_a         = PETSC_FALSE;
    2339:   sbaij->free_ij        = PETSC_FALSE;
    2340:   sbaij->free_imax_ilen = PETSC_TRUE;

    2342:   for (ii=0; ii<m; ii++) {
    2343:     sbaij->ilen[ii] = sbaij->imax[ii] = i[ii+1] - i[ii];
    2344:     if (PetscUnlikelyDebug(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]);
    2345:   }
    2346:   if (PetscDefined(USE_DEBUG)) {
    2347:     for (ii=0; ii<sbaij->i[m]; ii++) {
    2348:       if (j[ii] < 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Negative column index at location = %d index = %d",ii,j[ii]);
    2349:       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]);
    2350:     }
    2351:   }

    2353:   MatAssemblyBegin(*mat,MAT_FINAL_ASSEMBLY);
    2354:   MatAssemblyEnd(*mat,MAT_FINAL_ASSEMBLY);
    2355:   return(0);
    2356: }

    2358: PetscErrorCode MatCreateMPIMatConcatenateSeqMat_SeqSBAIJ(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat)
    2359: {
    2361:   PetscMPIInt    size;

    2364:   MPI_Comm_size(comm,&size);
    2365:   if (size == 1 && scall == MAT_REUSE_MATRIX) {
    2366:     MatCopy(inmat,*outmat,SAME_NONZERO_PATTERN);
    2367:   } else {
    2368:     MatCreateMPIMatConcatenateSeqMat_MPISBAIJ(comm,inmat,n,scall,outmat);
    2369:   }
    2370:   return(0);
    2371: }