static PetscErrorCode PCSetUp_LU(PC pc) { PetscErrorCode ierr; PC_LU *dir = (PC_LU*)pc->data; PetscFunctionBegin; if (dir->reusefill && pc->setupcalled) ((PC_Factor*)dir)->info.fill = dir->actualfill; if (dir->inplace) { if (dir->row && dir->col && dir->row != dir->col) {ierr = ISDestroy(dir->row);CHKERRQ(ierr);} if (dir->col) {ierr = ISDestroy(dir->col);CHKERRQ(ierr);} ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col);CHKERRQ(ierr); if (dir->row) { ierr = PetscLogObjectParent(pc,dir->row);CHKERRQ(ierr); ierr = PetscLogObjectParent(pc,dir->col);CHKERRQ(ierr); } ierr = MatLUFactor(pc->pmat,dir->row,dir->col,&((PC_Factor*)dir)->info);CHKERRQ(ierr); ((PC_Factor*)dir)->fact = pc->pmat; } else { MatInfo info; if (!pc->setupcalled) { ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col);CHKERRQ(ierr); if (dir->nonzerosalongdiagonal) { ierr = MatReorderForNonzeroDiagonal(pc->pmat,dir->nonzerosalongdiagonaltol,dir->row,dir->col);CHKERRQ(ierr); } if (dir->row) { ierr = PetscLogObjectParent(pc,dir->row);CHKERRQ(ierr); ierr = PetscLogObjectParent(pc,dir->col);CHKERRQ(ierr); } ierr = MatGetFactor(pc->pmat,((PC_Factor*)dir)->solvertype,MAT_FACTOR_LU,&((PC_Factor*)dir)->fact);CHKERRQ(ierr); ierr = MatLUFactorSymbolic(((PC_Factor*)dir)->fact,pc->pmat,dir->row,dir->col,&((PC_Factor*)dir)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)dir)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); dir->actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent(pc,((PC_Factor*)dir)->fact);CHKERRQ(ierr); } else if (pc->flag != SAME_NONZERO_PATTERN) { if (!dir->reuseordering) { if (dir->row && dir->col && dir->row != dir->col) {ierr = ISDestroy(dir->row);CHKERRQ(ierr);} if (dir->col) {ierr = ISDestroy(dir->col);CHKERRQ(ierr);} ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col);CHKERRQ(ierr); if (dir->nonzerosalongdiagonal) { ierr = MatReorderForNonzeroDiagonal(pc->pmat,dir->nonzerosalongdiagonaltol,dir->row,dir->col);CHKERRQ(ierr); } if (dir->row) { ierr = PetscLogObjectParent(pc,dir->row);CHKERRQ(ierr); ierr = PetscLogObjectParent(pc,dir->col);CHKERRQ(ierr); } } ierr = MatDestroy(((PC_Factor*)dir)->fact);CHKERRQ(ierr); ierr = MatGetFactor(pc->pmat,((PC_Factor*)dir)->solvertype,MAT_FACTOR_LU,&((PC_Factor*)dir)->fact);CHKERRQ(ierr); ierr = MatLUFactorSymbolic(((PC_Factor*)dir)->fact,pc->pmat,dir->row,dir->col,&((PC_Factor*)dir)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)dir)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); dir->actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent(pc,((PC_Factor*)dir)->fact);CHKERRQ(ierr); } ierr = MatLUFactorNumeric(((PC_Factor*)dir)->fact,pc->pmat,&((PC_Factor*)dir)->info);CHKERRQ(ierr); } PetscFunctionReturn(0); }
void PETSC_STDCALL matreorderfornonzerodiagonal_(Mat mat,PetscReal *abstol,IS ris,IS cis, int *__ierr ){ *__ierr = MatReorderForNonzeroDiagonal( (Mat)PetscToPointer((mat) ),*abstol, (IS)PetscToPointer((ris) ), (IS)PetscToPointer((cis) )); }
static PetscErrorCode PCSetUp_ILU(PC pc) { PetscErrorCode ierr; PC_ILU *ilu = (PC_ILU*)pc->data; MatInfo info; PetscBool flg; const MatSolverPackage stype; MatFactorError err; PetscFunctionBegin; pc->failedreason = PC_NOERROR; /* ugly hack to change default, since it is not support by some matrix types */ if (((PC_Factor*)ilu)->info.shifttype == (PetscReal)MAT_SHIFT_NONZERO) { ierr = PetscObjectTypeCompare((PetscObject)pc->pmat,MATSEQAIJ,&flg);CHKERRQ(ierr); if (!flg) { ierr = PetscObjectTypeCompare((PetscObject)pc->pmat,MATMPIAIJ,&flg);CHKERRQ(ierr); if (!flg) { ((PC_Factor*)ilu)->info.shifttype = (PetscReal)MAT_SHIFT_INBLOCKS; PetscInfo(pc,"Changing shift type from NONZERO to INBLOCKS because block matrices do not support NONZERO\n");CHKERRQ(ierr); } } } ierr = MatSetErrorIfFailure(pc->pmat,pc->erroriffailure);CHKERRQ(ierr); if (ilu->hdr.inplace) { if (!pc->setupcalled) { /* In-place factorization only makes sense with the natural ordering, so we only need to get the ordering once, even if nonzero structure changes */ ierr = MatGetOrdering(pc->pmat,((PC_Factor*)ilu)->ordering,&ilu->row,&ilu->col);CHKERRQ(ierr); if (ilu->row) {ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)ilu->row);CHKERRQ(ierr);} if (ilu->col) {ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)ilu->col);CHKERRQ(ierr);} } /* In place ILU only makes sense with fill factor of 1.0 because cannot have levels of fill */ ((PC_Factor*)ilu)->info.fill = 1.0; ((PC_Factor*)ilu)->info.diagonal_fill = 0.0; ierr = MatILUFactor(pc->pmat,ilu->row,ilu->col,&((PC_Factor*)ilu)->info);CHKERRQ(ierr);CHKERRQ(ierr); ierr = MatFactorGetError(pc->pmat,&err);CHKERRQ(ierr); if (err) { /* Factor() fails */ pc->failedreason = (PCFailedReason)err; PetscFunctionReturn(0); } ((PC_Factor*)ilu)->fact = pc->pmat; /* must update the pc record of the matrix state or the PC will attempt to run PCSetUp() yet again */ ierr = PetscObjectStateGet((PetscObject)pc->pmat,&pc->matstate);CHKERRQ(ierr); } else { if (!pc->setupcalled) { /* first time in so compute reordering and symbolic factorization */ ierr = MatGetOrdering(pc->pmat,((PC_Factor*)ilu)->ordering,&ilu->row,&ilu->col);CHKERRQ(ierr); if (ilu->row) {ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)ilu->row);CHKERRQ(ierr);} if (ilu->col) {ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)ilu->col);CHKERRQ(ierr);} /* Remove zeros along diagonal? */ if (ilu->nonzerosalongdiagonal) { ierr = MatReorderForNonzeroDiagonal(pc->pmat,ilu->nonzerosalongdiagonaltol,ilu->row,ilu->col);CHKERRQ(ierr); } if (!((PC_Factor*)ilu)->fact) { ierr = MatGetFactor(pc->pmat,((PC_Factor*)ilu)->solvertype,MAT_FACTOR_ILU,&((PC_Factor*)ilu)->fact);CHKERRQ(ierr); } ierr = MatILUFactorSymbolic(((PC_Factor*)ilu)->fact,pc->pmat,ilu->row,ilu->col,&((PC_Factor*)ilu)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)ilu)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); ilu->hdr.actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)((PC_Factor*)ilu)->fact);CHKERRQ(ierr); } else if (pc->flag != SAME_NONZERO_PATTERN) { if (!ilu->hdr.reuseordering) { /* compute a new ordering for the ILU */ ierr = ISDestroy(&ilu->row);CHKERRQ(ierr); ierr = ISDestroy(&ilu->col);CHKERRQ(ierr); ierr = MatGetOrdering(pc->pmat,((PC_Factor*)ilu)->ordering,&ilu->row,&ilu->col);CHKERRQ(ierr); if (ilu->row) {ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)ilu->row);CHKERRQ(ierr);} if (ilu->col) {ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)ilu->col);CHKERRQ(ierr);} /* Remove zeros along diagonal? */ if (ilu->nonzerosalongdiagonal) { ierr = MatReorderForNonzeroDiagonal(pc->pmat,ilu->nonzerosalongdiagonaltol,ilu->row,ilu->col);CHKERRQ(ierr); } } ierr = MatDestroy(&((PC_Factor*)ilu)->fact);CHKERRQ(ierr); ierr = MatGetFactor(pc->pmat,((PC_Factor*)ilu)->solvertype,MAT_FACTOR_ILU,&((PC_Factor*)ilu)->fact);CHKERRQ(ierr); ierr = MatILUFactorSymbolic(((PC_Factor*)ilu)->fact,pc->pmat,ilu->row,ilu->col,&((PC_Factor*)ilu)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)ilu)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); ilu->hdr.actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)((PC_Factor*)ilu)->fact);CHKERRQ(ierr); } ierr = MatFactorGetError(((PC_Factor*)ilu)->fact,&err);CHKERRQ(ierr); if (err) { /* FactorSymbolic() fails */ pc->failedreason = (PCFailedReason)err; PetscFunctionReturn(0); } ierr = MatLUFactorNumeric(((PC_Factor*)ilu)->fact,pc->pmat,&((PC_Factor*)ilu)->info);CHKERRQ(ierr); ierr = MatFactorGetError(((PC_Factor*)ilu)->fact,&err);CHKERRQ(ierr); if (err) { /* FactorNumeric() fails */ pc->failedreason = (PCFailedReason)err; } } ierr = PCFactorGetMatSolverPackage(pc,&stype);CHKERRQ(ierr); if (!stype) { const MatSolverPackage solverpackage; ierr = MatFactorGetSolverPackage(((PC_Factor*)ilu)->fact,&solverpackage);CHKERRQ(ierr); ierr = PCFactorSetMatSolverPackage(pc,solverpackage);CHKERRQ(ierr); } PetscFunctionReturn(0); }
int main(int argc,char **argv) { Mat mat,B; PetscErrorCode ierr; PetscInt i,j; PetscScalar v; IS isrow,iscol; PetscViewer viewer; ierr = PetscInitialize(&argc,&argv,(char*)0,help);CHKERRQ(ierr); /* ------- Assemble matrix, --------- */ ierr = MatCreate(PETSC_COMM_WORLD,&mat);CHKERRQ(ierr); ierr = MatSetSizes(mat,PETSC_DECIDE,PETSC_DECIDE,4,4);CHKERRQ(ierr); ierr = MatSetFromOptions(mat);CHKERRQ(ierr); ierr = MatSetUp(mat);CHKERRQ(ierr); /* set anti-diagonal of matrix */ v = 1.0; i = 0; j = 3; ierr = MatSetValues(mat,1,&i,1,&j,&v,INSERT_VALUES);CHKERRQ(ierr); v = 2.0; i = 1; j = 2; ierr = MatSetValues(mat,1,&i,1,&j,&v,INSERT_VALUES);CHKERRQ(ierr); v = 3.0; i = 2; j = 1; ierr = MatSetValues(mat,1,&i,1,&j,&v,INSERT_VALUES);CHKERRQ(ierr); v = 4.0; i = 3; j = 0; ierr = MatSetValues(mat,1,&i,1,&j,&v,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = PetscViewerASCIIGetStdout(PETSC_COMM_WORLD,&viewer);CHKERRQ(ierr); ierr = PetscViewerSetFormat(viewer,PETSC_VIEWER_ASCII_DENSE);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Original matrix\n");CHKERRQ(ierr); ierr = MatView(mat,viewer);CHKERRQ(ierr); ierr = MatGetOrdering(mat,MATORDERINGNATURAL,&isrow,&iscol);CHKERRQ(ierr); ierr = MatPermute(mat,isrow,iscol,&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Original matrix permuted by identity\n");CHKERRQ(ierr); ierr = MatView(B,viewer);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(mat,1.e-8,isrow,iscol);CHKERRQ(ierr); ierr = MatPermute(mat,isrow,iscol,&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Original matrix permuted by identity + NonzeroDiagonal()\n");CHKERRQ(ierr); ierr = MatView(B,viewer);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Row permutation\n");CHKERRQ(ierr); ierr = ISView(isrow,viewer);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Column permutation\n");CHKERRQ(ierr); ierr = ISView(iscol,viewer);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = ISDestroy(&isrow);CHKERRQ(ierr); ierr = ISDestroy(&iscol);CHKERRQ(ierr); ierr = MatGetOrdering(mat,MATORDERINGND,&isrow,&iscol);CHKERRQ(ierr); ierr = MatPermute(mat,isrow,iscol,&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Original matrix permuted by ND\n");CHKERRQ(ierr); ierr = MatView(B,viewer);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"ND row permutation\n");CHKERRQ(ierr); ierr = ISView(isrow,viewer);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"ND column permutation\n");CHKERRQ(ierr); ierr = ISView(iscol,viewer);CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(mat,1.e-8,isrow,iscol);CHKERRQ(ierr); ierr = MatPermute(mat,isrow,iscol,&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Original matrix permuted by ND + NonzeroDiagonal()\n");CHKERRQ(ierr); ierr = MatView(B,viewer);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"ND + NonzeroDiagonal() row permutation\n");CHKERRQ(ierr); ierr = ISView(isrow,viewer);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"ND + NonzeroDiagonal() column permutation\n");CHKERRQ(ierr); ierr = ISView(iscol,viewer);CHKERRQ(ierr); ierr = ISDestroy(&isrow);CHKERRQ(ierr); ierr = ISDestroy(&iscol);CHKERRQ(ierr); ierr = MatGetOrdering(mat,MATORDERINGRCM,&isrow,&iscol);CHKERRQ(ierr); ierr = MatPermute(mat,isrow,iscol,&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Original matrix permuted by RCM\n");CHKERRQ(ierr); ierr = MatView(B,viewer);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"RCM row permutation\n");CHKERRQ(ierr); ierr = ISView(isrow,viewer);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"RCM column permutation\n");CHKERRQ(ierr); ierr = ISView(iscol,viewer);CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(mat,1.e-8,isrow,iscol);CHKERRQ(ierr); ierr = MatPermute(mat,isrow,iscol,&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Original matrix permuted by RCM + NonzeroDiagonal()\n");CHKERRQ(ierr); ierr = MatView(B,viewer);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"RCM + NonzeroDiagonal() row permutation\n");CHKERRQ(ierr); ierr = ISView(isrow,viewer);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"RCM + NonzeroDiagonal() column permutation\n");CHKERRQ(ierr); ierr = ISView(iscol,viewer);CHKERRQ(ierr); ierr = MatLUFactor(mat,isrow,iscol,PETSC_NULL);CHKERRQ(ierr); ierr = PetscViewerASCIIPrintf(viewer,"Factored matrix permuted by RCM + NonzeroDiagonal()\n");CHKERRQ(ierr); ierr = MatView(mat,viewer);CHKERRQ(ierr); /* Free data structures */ ierr = ISDestroy(&isrow);CHKERRQ(ierr); ierr = ISDestroy(&iscol);CHKERRQ(ierr); ierr = MatDestroy(&mat);CHKERRQ(ierr); ierr = PetscFinalize(); return 0; }
static PetscErrorCode PCSetUp_Cholesky(PC pc) { PetscErrorCode ierr; PetscBool flg; PC_Cholesky *dir = (PC_Cholesky*)pc->data; const MatSolverPackage stype; MatFactorError err; PetscFunctionBegin; pc->failedreason = PC_NOERROR; if (dir->hdr.reusefill && pc->setupcalled) ((PC_Factor*)dir)->info.fill = dir->hdr.actualfill; ierr = MatSetErrorIfFailure(pc->pmat,pc->erroriffailure); CHKERRQ(ierr); if (dir->hdr.inplace) { if (dir->row && dir->col && (dir->row != dir->col)) { ierr = ISDestroy(&dir->row); CHKERRQ(ierr); } ierr = ISDestroy(&dir->col); CHKERRQ(ierr); ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col); CHKERRQ(ierr); if (dir->col && (dir->row != dir->col)) { /* only use row ordering for SBAIJ */ ierr = ISDestroy(&dir->col); CHKERRQ(ierr); } if (dir->row) { ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)dir->row); CHKERRQ(ierr); } ierr = MatCholeskyFactor(pc->pmat,dir->row,&((PC_Factor*)dir)->info); CHKERRQ(ierr); ierr = MatFactorGetError(pc->pmat,&err); CHKERRQ(ierr); if (err) { /* Factor() fails */ pc->failedreason = (PCFailedReason)err; PetscFunctionReturn(0); } ((PC_Factor*)dir)->fact = pc->pmat; } else { MatInfo info; if (!pc->setupcalled) { ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col); CHKERRQ(ierr); /* check if dir->row == dir->col */ ierr = ISEqual(dir->row,dir->col,&flg); CHKERRQ(ierr); if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_INCOMP,"row and column permutations must equal"); ierr = ISDestroy(&dir->col); CHKERRQ(ierr); /* only pass one ordering into CholeskyFactor */ flg = PETSC_FALSE; ierr = PetscOptionsGetBool(((PetscObject)pc)->options,((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&flg,NULL); CHKERRQ(ierr); if (flg) { PetscReal tol = 1.e-10; ierr = PetscOptionsGetReal(((PetscObject)pc)->options,((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&tol,NULL); CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(pc->pmat,tol,dir->row,dir->row); CHKERRQ(ierr); } if (dir->row) { ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)dir->row); CHKERRQ(ierr); } if (!((PC_Factor*)dir)->fact) { ierr = MatGetFactor(pc->pmat,((PC_Factor*)dir)->solvertype,MAT_FACTOR_CHOLESKY,&((PC_Factor*)dir)->fact); CHKERRQ(ierr); } ierr = MatCholeskyFactorSymbolic(((PC_Factor*)dir)->fact,pc->pmat,dir->row,&((PC_Factor*)dir)->info); CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)dir)->fact,MAT_LOCAL,&info); CHKERRQ(ierr); dir->hdr.actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)((PC_Factor*)dir)->fact); CHKERRQ(ierr); } else if (pc->flag != SAME_NONZERO_PATTERN) { if (!dir->hdr.reuseordering) { ierr = ISDestroy(&dir->row); CHKERRQ(ierr); ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col); CHKERRQ(ierr); ierr = ISDestroy(&dir->col); CHKERRQ(ierr); /* only use dir->row ordering in CholeskyFactor */ flg = PETSC_FALSE; ierr = PetscOptionsGetBool(((PetscObject)pc)->options,((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&flg,NULL); CHKERRQ(ierr); if (flg) { PetscReal tol = 1.e-10; ierr = PetscOptionsGetReal(((PetscObject)pc)->options,((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&tol,NULL); CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(pc->pmat,tol,dir->row,dir->row); CHKERRQ(ierr); } if (dir->row) { ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)dir->row); CHKERRQ(ierr); } } ierr = MatDestroy(&((PC_Factor*)dir)->fact); CHKERRQ(ierr); ierr = MatGetFactor(pc->pmat,((PC_Factor*)dir)->solvertype,MAT_FACTOR_CHOLESKY,&((PC_Factor*)dir)->fact); CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(((PC_Factor*)dir)->fact,pc->pmat,dir->row,&((PC_Factor*)dir)->info); CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)dir)->fact,MAT_LOCAL,&info); CHKERRQ(ierr); dir->hdr.actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent((PetscObject)pc,(PetscObject)((PC_Factor*)dir)->fact); CHKERRQ(ierr); } else { ierr = MatFactorGetError(((PC_Factor*)dir)->fact,&err); CHKERRQ(ierr); if (err == MAT_FACTOR_NUMERIC_ZEROPIVOT) { ierr = MatFactorClearError(((PC_Factor*)dir)->fact); CHKERRQ(ierr); pc->failedreason = PC_NOERROR; } } ierr = MatFactorGetError(((PC_Factor*)dir)->fact,&err); CHKERRQ(ierr); if (err) { /* FactorSymbolic() fails */ pc->failedreason = (PCFailedReason)err; PetscFunctionReturn(0); } ierr = MatCholeskyFactorNumeric(((PC_Factor*)dir)->fact,pc->pmat,&((PC_Factor*)dir)->info); CHKERRQ(ierr); ierr = MatFactorGetError(((PC_Factor*)dir)->fact,&err); CHKERRQ(ierr); if (err) { /* FactorNumeric() fails */ pc->failedreason = (PCFailedReason)err; } } ierr = PCFactorGetMatSolverPackage(pc,&stype); CHKERRQ(ierr); if (!stype) { const MatSolverPackage solverpackage; ierr = MatFactorGetSolverPackage(((PC_Factor*)dir)->fact,&solverpackage); CHKERRQ(ierr); ierr = PCFactorSetMatSolverPackage(pc,solverpackage); CHKERRQ(ierr); } PetscFunctionReturn(0); }
static PetscErrorCode PCSetUp_Cholesky(PC pc) { PetscErrorCode ierr; PetscBool flg; PC_Cholesky *dir = (PC_Cholesky*)pc->data; PetscFunctionBegin; if (dir->reusefill && pc->setupcalled) ((PC_Factor*)dir)->info.fill = dir->actualfill; if (dir->inplace) { if (dir->row && dir->col && (dir->row != dir->col)) { ierr = ISDestroy(&dir->row);CHKERRQ(ierr); } ierr = ISDestroy(&dir->col);CHKERRQ(ierr); ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col);CHKERRQ(ierr); if (dir->col && (dir->row != dir->col)) { /* only use row ordering for SBAIJ */ ierr = ISDestroy(&dir->col);CHKERRQ(ierr); } if (dir->row) {ierr = PetscLogObjectParent(pc,dir->row);CHKERRQ(ierr);} ierr = MatCholeskyFactor(pc->pmat,dir->row,&((PC_Factor*)dir)->info);CHKERRQ(ierr); ((PC_Factor*)dir)->fact = pc->pmat; } else { MatInfo info; if (!pc->setupcalled) { ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col);CHKERRQ(ierr); /* check if dir->row == dir->col */ ierr = ISEqual(dir->row,dir->col,&flg);CHKERRQ(ierr); if (!flg) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_INCOMP,"row and column permutations must equal"); ierr = ISDestroy(&dir->col);CHKERRQ(ierr); /* only pass one ordering into CholeskyFactor */ flg = PETSC_FALSE; ierr = PetscOptionsGetBool(((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&flg,PETSC_NULL);CHKERRQ(ierr); if (flg) { PetscReal tol = 1.e-10; ierr = PetscOptionsGetReal(((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&tol,PETSC_NULL);CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(pc->pmat,tol,dir->row,dir->row);CHKERRQ(ierr); } if (dir->row) {ierr = PetscLogObjectParent(pc,dir->row);CHKERRQ(ierr);} if (!((PC_Factor*)dir)->fact){ ierr = MatGetFactor(pc->pmat,((PC_Factor*)dir)->solvertype,MAT_FACTOR_CHOLESKY,&((PC_Factor*)dir)->fact);CHKERRQ(ierr); } ierr = MatCholeskyFactorSymbolic(((PC_Factor*)dir)->fact,pc->pmat,dir->row,&((PC_Factor*)dir)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)dir)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); dir->actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent(pc,((PC_Factor*)dir)->fact);CHKERRQ(ierr); } else if (pc->flag != SAME_NONZERO_PATTERN) { if (!dir->reuseordering) { ierr = ISDestroy(&dir->row);CHKERRQ(ierr); ierr = MatGetOrdering(pc->pmat,((PC_Factor*)dir)->ordering,&dir->row,&dir->col);CHKERRQ(ierr); ierr = ISDestroy(&dir->col);CHKERRQ(ierr); /* only use dir->row ordering in CholeskyFactor */ flg = PETSC_FALSE; ierr = PetscOptionsGetBool(((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&flg,PETSC_NULL);CHKERRQ(ierr); if (flg) { PetscReal tol = 1.e-10; ierr = PetscOptionsGetReal(((PetscObject)pc)->prefix,"-pc_factor_nonzeros_along_diagonal",&tol,PETSC_NULL);CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(pc->pmat,tol,dir->row,dir->row);CHKERRQ(ierr); } if (dir->row) {ierr = PetscLogObjectParent(pc,dir->row);CHKERRQ(ierr);} } ierr = MatDestroy(&((PC_Factor*)dir)->fact);CHKERRQ(ierr); ierr = MatGetFactor(pc->pmat,((PC_Factor*)dir)->solvertype,MAT_FACTOR_CHOLESKY,&((PC_Factor*)dir)->fact);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(((PC_Factor*)dir)->fact,pc->pmat,dir->row,&((PC_Factor*)dir)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)dir)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); dir->actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent(pc,((PC_Factor*)dir)->fact);CHKERRQ(ierr); } ierr = MatCholeskyFactorNumeric(((PC_Factor*)dir)->fact,pc->pmat,&((PC_Factor*)dir)->info);CHKERRQ(ierr); } PetscFunctionReturn(0); }
static PetscErrorCode PCSetUp_ILU(PC pc) { PetscErrorCode ierr; PC_ILU *ilu = (PC_ILU*)pc->data; MatInfo info; PetscBool flg; PetscFunctionBegin; /* ugly hack to change default, since it is not support by some matrix types */ if (((PC_Factor*)ilu)->info.shifttype == (PetscReal)MAT_SHIFT_NONZERO) { ierr = PetscObjectTypeCompare((PetscObject)pc->pmat,MATSEQAIJ,&flg);CHKERRQ(ierr); if (!flg) { ierr = PetscObjectTypeCompare((PetscObject)pc->pmat,MATMPIAIJ,&flg);CHKERRQ(ierr); if (!flg) { ((PC_Factor*)ilu)->info.shifttype = (PetscReal)MAT_SHIFT_INBLOCKS; PetscInfo(pc,"Changing shift type from NONZERO to INBLOCKS because block matrices do not support NONZERO");CHKERRQ(ierr); } } } if (ilu->inplace) { CHKMEMQ; if (!pc->setupcalled) { /* In-place factorization only makes sense with the natural ordering, so we only need to get the ordering once, even if nonzero structure changes */ ierr = MatGetOrdering(pc->pmat,((PC_Factor*)ilu)->ordering,&ilu->row,&ilu->col);CHKERRQ(ierr); if (ilu->row) {ierr = PetscLogObjectParent(pc,ilu->row);CHKERRQ(ierr);} if (ilu->col) {ierr = PetscLogObjectParent(pc,ilu->col);CHKERRQ(ierr);} } /* In place ILU only makes sense with fill factor of 1.0 because cannot have levels of fill */ ((PC_Factor*)ilu)->info.fill = 1.0; ((PC_Factor*)ilu)->info.diagonal_fill = 0.0; ierr = MatILUFactor(pc->pmat,ilu->row,ilu->col,&((PC_Factor*)ilu)->info);CHKERRQ(ierr);CHKMEMQ; ((PC_Factor*)ilu)->fact = pc->pmat; } else { if (!pc->setupcalled) { /* first time in so compute reordering and symbolic factorization */ ierr = MatGetOrdering(pc->pmat,((PC_Factor*)ilu)->ordering,&ilu->row,&ilu->col);CHKERRQ(ierr); if (ilu->row) {ierr = PetscLogObjectParent(pc,ilu->row);CHKERRQ(ierr);} if (ilu->col) {ierr = PetscLogObjectParent(pc,ilu->col);CHKERRQ(ierr);} /* Remove zeros along diagonal? */ if (ilu->nonzerosalongdiagonal) { ierr = MatReorderForNonzeroDiagonal(pc->pmat,ilu->nonzerosalongdiagonaltol,ilu->row,ilu->col);CHKERRQ(ierr); } if (!((PC_Factor*)ilu)->fact){ ierr = MatGetFactor(pc->pmat,((PC_Factor*)ilu)->solvertype,MAT_FACTOR_ILU,&((PC_Factor*)ilu)->fact);CHKERRQ(ierr); } ierr = MatILUFactorSymbolic(((PC_Factor*)ilu)->fact,pc->pmat,ilu->row,ilu->col,&((PC_Factor*)ilu)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)ilu)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); ilu->actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent(pc,((PC_Factor*)ilu)->fact);CHKERRQ(ierr); } else if (pc->flag != SAME_NONZERO_PATTERN) { if (!ilu->reuseordering) { /* compute a new ordering for the ILU */ ierr = ISDestroy(&ilu->row);CHKERRQ(ierr); ierr = ISDestroy(&ilu->col);CHKERRQ(ierr); ierr = MatGetOrdering(pc->pmat,((PC_Factor*)ilu)->ordering,&ilu->row,&ilu->col);CHKERRQ(ierr); if (ilu->row) {ierr = PetscLogObjectParent(pc,ilu->row);CHKERRQ(ierr);} if (ilu->col) {ierr = PetscLogObjectParent(pc,ilu->col);CHKERRQ(ierr);} /* Remove zeros along diagonal? */ if (ilu->nonzerosalongdiagonal) { ierr = MatReorderForNonzeroDiagonal(pc->pmat,ilu->nonzerosalongdiagonaltol,ilu->row,ilu->col);CHKERRQ(ierr); } } ierr = MatDestroy(&((PC_Factor*)ilu)->fact);CHKERRQ(ierr); ierr = MatGetFactor(pc->pmat,((PC_Factor*)ilu)->solvertype,MAT_FACTOR_ILU,&((PC_Factor*)ilu)->fact);CHKERRQ(ierr); ierr = MatILUFactorSymbolic(((PC_Factor*)ilu)->fact,pc->pmat,ilu->row,ilu->col,&((PC_Factor*)ilu)->info);CHKERRQ(ierr); ierr = MatGetInfo(((PC_Factor*)ilu)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); ilu->actualfill = info.fill_ratio_needed; ierr = PetscLogObjectParent(pc,((PC_Factor*)ilu)->fact);CHKERRQ(ierr); } CHKMEMQ; ierr = MatLUFactorNumeric(((PC_Factor*)ilu)->fact,pc->pmat,&((PC_Factor*)ilu)->info);CHKERRQ(ierr); CHKMEMQ; } PetscFunctionReturn(0); }
int main(int argc,char **args) { Mat A,LU; Vec x,y; PetscInt nnz[4]={2,1,1,1},col[4],i; PetscErrorCode ierr; PetscScalar values[4]; IS rowperm,colperm; PetscInitialize(&argc,&args,(char*)0,help); ierr = MatCreateSeqAIJ(PETSC_COMM_WORLD,4,4,2,nnz,&A);CHKERRQ(ierr); /* build test matrix */ values[0]=1.0;values[1]=-1.0; col[0] =0;col[1]=2; i=0; ierr = MatSetValues(A,1,&i,2,col,values,INSERT_VALUES);CHKERRQ(ierr); values[0]=1.0; col[0] =1;i=1; ierr = MatSetValues(A,1,&i,1,col,values,INSERT_VALUES);CHKERRQ(ierr); values[0]=-1.0; col[0] =3;i=2; ierr = MatSetValues(A,1,&i,1,col,values,INSERT_VALUES);CHKERRQ(ierr); values[0]=1.0; col[0] =2;i=3; ierr = MatSetValues(A,1,&i,1,col,values,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatView(A,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr); ierr = MatGetOrdering(A,MATORDERINGNATURAL,&rowperm,&colperm);CHKERRQ(ierr); ierr = MatReorderForNonzeroDiagonal(A,1.e-12,rowperm,colperm);CHKERRQ(ierr); ierr = PetscPrintf(PETSC_COMM_SELF,"column and row perms\n");CHKERRQ(ierr); ierr = ISView(rowperm,0);CHKERRQ(ierr); ierr = ISView(colperm,0);CHKERRQ(ierr); ierr = MatGetFactor(A,MATSOLVERPETSC,MAT_FACTOR_LU,&LU);CHKERRQ(ierr); ierr = MatLUFactorSymbolic(LU,A,rowperm,colperm,NULL);CHKERRQ(ierr); ierr = MatLUFactorNumeric(LU,A,NULL);CHKERRQ(ierr); ierr = MatView(LU,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr); ierr = VecCreate(PETSC_COMM_WORLD,&x);CHKERRQ(ierr); ierr = VecSetSizes(x,PETSC_DECIDE,4);CHKERRQ(ierr); ierr = VecSetFromOptions(x);CHKERRQ(ierr); ierr = VecDuplicate(x,&y);CHKERRQ(ierr); values[0]=0;values[1]=1.0;values[2]=-1.0;values[3]=1.0; for (i=0; i<4; i++) col[i]=i; ierr = VecSetValues(x,4,col,values,INSERT_VALUES);CHKERRQ(ierr); ierr = VecAssemblyBegin(x);CHKERRQ(ierr); ierr = VecAssemblyEnd(x);CHKERRQ(ierr); ierr = VecView(x,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr); ierr = MatSolve(LU,x,y);CHKERRQ(ierr); ierr = VecView(y,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr); ierr = ISDestroy(&rowperm);CHKERRQ(ierr); ierr = ISDestroy(&colperm);CHKERRQ(ierr); ierr = MatDestroy(&LU);CHKERRQ(ierr); ierr = MatDestroy(&A);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = VecDestroy(&y);CHKERRQ(ierr); ierr = PetscFinalize(); return 0; }