static PetscErrorCode PCSetup_ICC(PC pc) { PC_ICC *icc = (PC_ICC*)pc->data; IS perm,cperm; PetscErrorCode ierr; MatInfo info; PetscFunctionBegin; ierr = MatGetOrdering(pc->pmat, ((PC_Factor*)icc)->ordering,&perm,&cperm);CHKERRQ(ierr); if (!pc->setupcalled) { if (!((PC_Factor*)icc)->fact) { ierr = MatGetFactor(pc->pmat,((PC_Factor*)icc)->solvertype,MAT_FACTOR_ICC,&((PC_Factor*)icc)->fact);CHKERRQ(ierr); } ierr = MatICCFactorSymbolic(((PC_Factor*)icc)->fact,pc->pmat,perm,&((PC_Factor*)icc)->info);CHKERRQ(ierr); } else if (pc->flag != SAME_NONZERO_PATTERN) { ierr = MatDestroy(&((PC_Factor*)icc)->fact);CHKERRQ(ierr); ierr = MatGetFactor(pc->pmat,((PC_Factor*)icc)->solvertype,MAT_FACTOR_ICC,&((PC_Factor*)icc)->fact);CHKERRQ(ierr); ierr = MatICCFactorSymbolic(((PC_Factor*)icc)->fact,pc->pmat,perm,&((PC_Factor*)icc)->info);CHKERRQ(ierr); } ierr = MatGetInfo(((PC_Factor*)icc)->fact,MAT_LOCAL,&info);CHKERRQ(ierr); icc->actualfill = info.fill_ratio_needed; ierr = ISDestroy(&cperm);CHKERRQ(ierr); ierr = ISDestroy(&perm);CHKERRQ(ierr); ierr = MatCholeskyFactorNumeric(((PC_Factor*)icc)->fact,pc->pmat,&((PC_Factor*)icc)->info);CHKERRQ(ierr); PetscFunctionReturn(0); }
int main(int argc,char **args) { PetscMPIInt size; PetscErrorCode ierr; Vec x,y,b,s1,s2; Mat A; /* linear system matrix */ Mat sA,sB,sC; /* symmetric part of the matrices */ PetscInt n,mbs=16,bs=1,nz=3,prob=1,i,j,k1,k2,col[3],lf,block, row,Ii,J,n1,inc; PetscReal norm1,norm2,rnorm,tol=PETSC_SMALL; PetscScalar neg_one = -1.0,four=4.0,value[3]; IS perm, iscol; PetscRandom rdm; PetscBool doIcc=PETSC_TRUE,equal; MatInfo minfo1,minfo2; MatFactorInfo factinfo; MatType type; PetscInitialize(&argc,&args,(char*)0,help); ierr = MPI_Comm_size(PETSC_COMM_WORLD,&size);CHKERRQ(ierr); if (size != 1) SETERRQ(PETSC_COMM_WORLD,PETSC_ERR_SUP,"This is a uniprocessor example only!"); ierr = PetscOptionsGetInt(NULL,"-bs",&bs,NULL);CHKERRQ(ierr); ierr = PetscOptionsGetInt(NULL,"-mbs",&mbs,NULL);CHKERRQ(ierr); n = mbs*bs; ierr = MatCreate(PETSC_COMM_SELF,&A);CHKERRQ(ierr); ierr = MatSetSizes(A,n,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); ierr = MatSetType(A,MATSEQBAIJ);CHKERRQ(ierr); ierr = MatSetFromOptions(A);CHKERRQ(ierr); ierr = MatSeqBAIJSetPreallocation(A,bs,nz,NULL);CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_SELF,&sA);CHKERRQ(ierr); ierr = MatSetSizes(sA,n,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); ierr = MatSetType(sA,MATSEQSBAIJ);CHKERRQ(ierr); ierr = MatSetFromOptions(sA);CHKERRQ(ierr); ierr = MatGetType(sA,&type);CHKERRQ(ierr); ierr = PetscObjectTypeCompare((PetscObject)sA,MATSEQSBAIJ,&doIcc);CHKERRQ(ierr); ierr = MatSeqSBAIJSetPreallocation(sA,bs,nz,NULL);CHKERRQ(ierr); ierr = MatSetOption(sA,MAT_IGNORE_LOWER_TRIANGULAR,PETSC_TRUE);CHKERRQ(ierr); /* Test MatGetOwnershipRange() */ ierr = MatGetOwnershipRange(A,&Ii,&J);CHKERRQ(ierr); ierr = MatGetOwnershipRange(sA,&i,&j);CHKERRQ(ierr); if (i-Ii || j-J) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error: MatGetOwnershipRange() in MatSBAIJ format\n");CHKERRQ(ierr); } /* Assemble matrix */ if (bs == 1) { ierr = PetscOptionsGetInt(NULL,"-test_problem",&prob,NULL);CHKERRQ(ierr); if (prob == 1) { /* tridiagonal matrix */ value[0] = -1.0; value[1] = 2.0; value[2] = -1.0; for (i=1; i<n-1; i++) { col[0] = i-1; col[1] = i; col[2] = i+1; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); } i = n - 1; col[0]=0; col[1] = n - 2; col[2] = n - 1; value[0]= 0.1; value[1]=-1; value[2]=2; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); i = 0; col[0] = n-1; col[1] = 1; col[2] = 0; value[0] = 0.1; value[1] = -1.0; value[2] = 2; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); } else if (prob ==2) { /* matrix for the five point stencil */ n1 = (PetscInt) (PetscSqrtReal((PetscReal)n) + 0.001); if (n1*n1 - n) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"sqrt(n) must be a positive interger!"); for (i=0; i<n1; i++) { for (j=0; j<n1; j++) { Ii = j + n1*i; if (i>0) { J = Ii - n1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } if (i<n1-1) { J = Ii + n1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } if (j>0) { J = Ii - 1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } if (j<n1-1) { J = Ii + 1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } ierr = MatSetValues(A,1,&Ii,1,&Ii,&four,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&Ii,1,&Ii,&four,INSERT_VALUES);CHKERRQ(ierr); } } } } else { /* bs > 1 */ for (block=0; block<n/bs; block++) { /* diagonal blocks */ value[0] = -1.0; value[1] = 4.0; value[2] = -1.0; for (i=1+block*bs; i<bs-1+block*bs; i++) { col[0] = i-1; col[1] = i; col[2] = i+1; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); } i = bs - 1+block*bs; col[0] = bs - 2+block*bs; col[1] = bs - 1+block*bs; value[0]=-1.0; value[1]=4.0; ierr = MatSetValues(A,1,&i,2,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&i,2,col,value,INSERT_VALUES);CHKERRQ(ierr); i = 0+block*bs; col[0] = 0+block*bs; col[1] = 1+block*bs; value[0]=4.0; value[1] = -1.0; ierr = MatSetValues(A,1,&i,2,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&i,2,col,value,INSERT_VALUES);CHKERRQ(ierr); } /* off-diagonal blocks */ value[0]=-1.0; for (i=0; i<(n/bs-1)*bs; i++) { col[0]=i+bs; ierr = MatSetValues(A,1,&i,1,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&i,1,col,value,INSERT_VALUES);CHKERRQ(ierr); col[0]=i; row=i+bs; ierr = MatSetValues(A,1,&row,1,col,value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatSetValues(sA,1,&row,1,col,value,INSERT_VALUES);CHKERRQ(ierr); } } ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyBegin(sA,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(sA,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); /* Test MatGetInfo() of A and sA */ ierr = MatGetInfo(A,MAT_LOCAL,&minfo1);CHKERRQ(ierr); ierr = MatGetInfo(sA,MAT_LOCAL,&minfo2);CHKERRQ(ierr); /* printf("A matrix nonzeros (BAIJ format) = %d, allocated nonzeros= %d\n", (int)minfo1.nz_used,(int)minfo1.nz_allocated); printf("sA matrix nonzeros(SBAIJ format) = %d, allocated nonzeros= %d\n", (int)minfo2.nz_used,(int)minfo2.nz_allocated); */ i = (int) (minfo1.nz_used - minfo2.nz_used); j = (int) (minfo1.nz_allocated - minfo2.nz_allocated); k1 = (int) (minfo1.nz_allocated - minfo1.nz_used); k2 = (int) (minfo2.nz_allocated - minfo2.nz_used); if (i < 0 || j < 0 || k1 < 0 || k2 < 0) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error (compare A and sA): MatGetInfo()\n");CHKERRQ(ierr); } /* Test MatDuplicate() */ ierr = MatNorm(A,NORM_FROBENIUS,&norm1);CHKERRQ(ierr); ierr = MatDuplicate(sA,MAT_COPY_VALUES,&sB);CHKERRQ(ierr); ierr = MatEqual(sA,sB,&equal);CHKERRQ(ierr); if (!equal) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_NOTSAMETYPE,"Error in MatDuplicate()"); /* Test MatNorm() */ ierr = MatNorm(A,NORM_FROBENIUS,&norm1);CHKERRQ(ierr); ierr = MatNorm(sB,NORM_FROBENIUS,&norm2);CHKERRQ(ierr); rnorm = PetscAbsReal(norm1-norm2)/norm2; if (rnorm > tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error: MatNorm_FROBENIUS, NormA=%16.14e NormsB=%16.14e\n",norm1,norm2);CHKERRQ(ierr); } ierr = MatNorm(A,NORM_INFINITY,&norm1);CHKERRQ(ierr); ierr = MatNorm(sB,NORM_INFINITY,&norm2);CHKERRQ(ierr); rnorm = PetscAbsReal(norm1-norm2)/norm2; if (rnorm > tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error: MatNorm_INFINITY(), NormA=%16.14e NormsB=%16.14e\n",norm1,norm2);CHKERRQ(ierr); } ierr = MatNorm(A,NORM_1,&norm1);CHKERRQ(ierr); ierr = MatNorm(sB,NORM_1,&norm2);CHKERRQ(ierr); rnorm = PetscAbsReal(norm1-norm2)/norm2; if (rnorm > tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error: MatNorm_INFINITY(), NormA=%16.14e NormsB=%16.14e\n",norm1,norm2);CHKERRQ(ierr); } /* Test MatGetInfo(), MatGetSize(), MatGetBlockSize() */ ierr = MatGetInfo(A,MAT_LOCAL,&minfo1);CHKERRQ(ierr); ierr = MatGetInfo(sB,MAT_LOCAL,&minfo2);CHKERRQ(ierr); /* printf("matrix nonzeros (BAIJ format) = %d, allocated nonzeros= %d\n", (int)minfo1.nz_used,(int)minfo1.nz_allocated); printf("matrix nonzeros(SBAIJ format) = %d, allocated nonzeros= %d\n", (int)minfo2.nz_used,(int)minfo2.nz_allocated); */ i = (int) (minfo1.nz_used - minfo2.nz_used); j = (int) (minfo1.nz_allocated - minfo2.nz_allocated); k1 = (int) (minfo1.nz_allocated - minfo1.nz_used); k2 = (int) (minfo2.nz_allocated - minfo2.nz_used); if (i < 0 || j < 0 || k1 < 0 || k2 < 0) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error(compare A and sB): MatGetInfo()\n");CHKERRQ(ierr); } ierr = MatGetSize(A,&Ii,&J);CHKERRQ(ierr); ierr = MatGetSize(sB,&i,&j);CHKERRQ(ierr); if (i-Ii || j-J) { PetscPrintf(PETSC_COMM_SELF,"Error: MatGetSize()\n");CHKERRQ(ierr); } ierr = MatGetBlockSize(A, &Ii);CHKERRQ(ierr); ierr = MatGetBlockSize(sB, &i);CHKERRQ(ierr); if (i-Ii) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error: MatGetBlockSize()\n");CHKERRQ(ierr); } ierr = PetscRandomCreate(PETSC_COMM_SELF,&rdm);CHKERRQ(ierr); ierr = PetscRandomSetFromOptions(rdm);CHKERRQ(ierr); ierr = VecCreateSeq(PETSC_COMM_SELF,n,&x);CHKERRQ(ierr); ierr = VecDuplicate(x,&s1);CHKERRQ(ierr); ierr = VecDuplicate(x,&s2);CHKERRQ(ierr); ierr = VecDuplicate(x,&y);CHKERRQ(ierr); ierr = VecDuplicate(x,&b);CHKERRQ(ierr); ierr = VecSetRandom(x,rdm);CHKERRQ(ierr); /* Test MatDiagonalScale(), MatGetDiagonal(), MatScale() */ #if !defined(PETSC_USE_COMPLEX) /* Scaling matrix with complex numbers results non-spd matrix, causing crash of MatForwardSolve() and MatBackwardSolve() */ ierr = MatDiagonalScale(A,x,x);CHKERRQ(ierr); ierr = MatDiagonalScale(sB,x,x);CHKERRQ(ierr); ierr = MatMultEqual(A,sB,10,&equal);CHKERRQ(ierr); if (!equal) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_NOTSAMETYPE,"Error in MatDiagonalScale"); ierr = MatGetDiagonal(A,s1);CHKERRQ(ierr); ierr = MatGetDiagonal(sB,s2);CHKERRQ(ierr); ierr = VecAXPY(s2,neg_one,s1);CHKERRQ(ierr); ierr = VecNorm(s2,NORM_1,&norm1);CHKERRQ(ierr); if (norm1>tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error:MatGetDiagonal(), ||s1-s2||=%G\n",norm1);CHKERRQ(ierr); } { PetscScalar alpha=0.1; ierr = MatScale(A,alpha);CHKERRQ(ierr); ierr = MatScale(sB,alpha);CHKERRQ(ierr); } #endif /* Test MatGetRowMaxAbs() */ ierr = MatGetRowMaxAbs(A,s1,NULL);CHKERRQ(ierr); ierr = MatGetRowMaxAbs(sB,s2,NULL);CHKERRQ(ierr); ierr = VecNorm(s1,NORM_1,&norm1);CHKERRQ(ierr); ierr = VecNorm(s2,NORM_1,&norm2);CHKERRQ(ierr); norm1 -= norm2; if (norm1<-tol || norm1>tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error:MatGetRowMaxAbs() \n");CHKERRQ(ierr); } /* Test MatMult() */ for (i=0; i<40; i++) { ierr = VecSetRandom(x,rdm);CHKERRQ(ierr); ierr = MatMult(A,x,s1);CHKERRQ(ierr); ierr = MatMult(sB,x,s2);CHKERRQ(ierr); ierr = VecNorm(s1,NORM_1,&norm1);CHKERRQ(ierr); ierr = VecNorm(s2,NORM_1,&norm2);CHKERRQ(ierr); norm1 -= norm2; if (norm1<-tol || norm1>tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error: MatMult(), norm1-norm2: %G\n",norm1);CHKERRQ(ierr); } } /* MatMultAdd() */ for (i=0; i<40; i++) { ierr = VecSetRandom(x,rdm);CHKERRQ(ierr); ierr = VecSetRandom(y,rdm);CHKERRQ(ierr); ierr = MatMultAdd(A,x,y,s1);CHKERRQ(ierr); ierr = MatMultAdd(sB,x,y,s2);CHKERRQ(ierr); ierr = VecNorm(s1,NORM_1,&norm1);CHKERRQ(ierr); ierr = VecNorm(s2,NORM_1,&norm2);CHKERRQ(ierr); norm1 -= norm2; if (norm1<-tol || norm1>tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"Error:MatMultAdd(), norm1-norm2: %G\n",norm1);CHKERRQ(ierr); } } /* Test MatCholeskyFactor(), MatICCFactor() with natural ordering */ ierr = MatGetOrdering(A,MATORDERINGNATURAL,&perm,&iscol);CHKERRQ(ierr); ierr = ISDestroy(&iscol);CHKERRQ(ierr); norm1 = tol; inc = bs; /* initialize factinfo */ ierr = PetscMemzero(&factinfo,sizeof(MatFactorInfo));CHKERRQ(ierr); for (lf=-1; lf<10; lf += inc) { if (lf==-1) { /* Cholesky factor of sB (duplicate sA) */ factinfo.fill = 5.0; ierr = MatGetFactor(sB,MATSOLVERPETSC,MAT_FACTOR_CHOLESKY,&sC);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(sC,sB,perm,&factinfo);CHKERRQ(ierr); } else if (!doIcc) break; else { /* incomplete Cholesky factor */ factinfo.fill = 5.0; factinfo.levels = lf; ierr = MatGetFactor(sB,MATSOLVERPETSC,MAT_FACTOR_ICC,&sC);CHKERRQ(ierr); ierr = MatICCFactorSymbolic(sC,sB,perm,&factinfo);CHKERRQ(ierr); } ierr = MatCholeskyFactorNumeric(sC,sB,&factinfo);CHKERRQ(ierr); /* MatView(sC, PETSC_VIEWER_DRAW_WORLD); */ /* test MatGetDiagonal on numeric factor */ /* if (lf == -1) { ierr = MatGetDiagonal(sC,s1);CHKERRQ(ierr); printf(" in ex74.c, diag: \n"); ierr = VecView(s1,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr); } */ ierr = MatMult(sB,x,b);CHKERRQ(ierr); /* test MatForwardSolve() and MatBackwardSolve() */ if (lf == -1) { ierr = MatForwardSolve(sC,b,s1);CHKERRQ(ierr); ierr = MatBackwardSolve(sC,s1,s2);CHKERRQ(ierr); ierr = VecAXPY(s2,neg_one,x);CHKERRQ(ierr); ierr = VecNorm(s2,NORM_2,&norm2);CHKERRQ(ierr); if (10*norm1 < norm2) { ierr = PetscPrintf(PETSC_COMM_SELF,"MatForwardSolve and BackwardSolve: Norm of error=%G, bs=%d\n",norm2,bs);CHKERRQ(ierr); } } /* test MatSolve() */ ierr = MatSolve(sC,b,y);CHKERRQ(ierr); ierr = MatDestroy(&sC);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(y,neg_one,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm2);CHKERRQ(ierr); /* printf("lf: %d, error: %G\n", lf,norm2); */ if (10*norm1 < norm2 && lf-inc != -1) { ierr = PetscPrintf(PETSC_COMM_SELF,"lf=%D, %D, Norm of error=%G, %G\n",lf-inc,lf,norm1,norm2);CHKERRQ(ierr); } norm1 = norm2; if (norm2 < tol && lf != -1) break; } ierr = ISDestroy(&perm);CHKERRQ(ierr); ierr = MatDestroy(&A);CHKERRQ(ierr); ierr = MatDestroy(&sB);CHKERRQ(ierr); ierr = MatDestroy(&sA);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = VecDestroy(&y);CHKERRQ(ierr); ierr = VecDestroy(&s1);CHKERRQ(ierr); ierr = VecDestroy(&s2);CHKERRQ(ierr); ierr = VecDestroy(&b);CHKERRQ(ierr); ierr = PetscRandomDestroy(&rdm);CHKERRQ(ierr); ierr = PetscFinalize(); return 0; }
Example: mpiexec -n <np> ./ex168 -f <matrix binary file> \n\n"; #include <petscmat.h> int main(int argc,char **args) { Mat A,F; Vec u,x,b; PetscErrorCode ierr; PetscMPIInt rank,size; PetscInt m,n,nfact; PetscReal norm,tol=1.e-12,Anorm; IS perm,iperm; MatFactorInfo info; PetscBool flg,testMatSolve=PETSC_TRUE; PetscViewer fd; /* viewer */ char file[PETSC_MAX_PATH_LEN]; /* input file name */ ierr = PetscInitialize(&argc,&args,(char*)0,help);if (ierr) return ierr; ierr = MPI_Comm_rank(PETSC_COMM_WORLD, &rank);CHKERRQ(ierr); ierr = MPI_Comm_size(PETSC_COMM_WORLD, &size);CHKERRQ(ierr); /* Determine file from which we read the matrix A */ ierr = PetscOptionsGetString(NULL,NULL,"-f",file,PETSC_MAX_PATH_LEN,&flg);CHKERRQ(ierr); if (!flg) SETERRQ(PETSC_COMM_WORLD,1,"Must indicate binary file with the -f option"); /* Load matrix A */ ierr = PetscViewerBinaryOpen(PETSC_COMM_WORLD,file,FILE_MODE_READ,&fd);CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&A);CHKERRQ(ierr); ierr = MatLoad(A,fd);CHKERRQ(ierr); ierr = VecCreate(PETSC_COMM_WORLD,&b);CHKERRQ(ierr); ierr = VecLoad(b,fd);CHKERRQ(ierr); ierr = PetscViewerDestroy(&fd);CHKERRQ(ierr); ierr = MatGetLocalSize(A,&m,&n);CHKERRQ(ierr); if (m != n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ, "This example is not intended for rectangular matrices (%d, %d)", m, n); ierr = MatNorm(A,NORM_INFINITY,&Anorm);CHKERRQ(ierr); /* Create vectors */ ierr = VecDuplicate(b,&x);CHKERRQ(ierr); ierr = VecDuplicate(x,&u);CHKERRQ(ierr); /* save the true solution */ /* Test Cholesky Factorization */ ierr = MatGetOrdering(A,MATORDERINGNATURAL,&perm,&iperm);CHKERRQ(ierr); if (!rank) printf(" Clique Cholesky:\n"); ierr = MatGetFactor(A,MATSOLVERCLIQUE,MAT_FACTOR_CHOLESKY,&F);CHKERRQ(ierr); info.fill = 5.0; ierr = MatCholeskyFactorSymbolic(F,A,perm,&info);CHKERRQ(ierr); for (nfact = 0; nfact < 1; nfact++) { if (!rank) printf(" %d-the Cholesky numfactorization \n",nfact); ierr = MatCholeskyFactorNumeric(F,A,&info);CHKERRQ(ierr); /* Test MatSolve() */ if (testMatSolve && nfact == 2) { ierr = MatSolve(F,b,x);CHKERRQ(ierr); /* Check the residual */ ierr = MatMult(A,x,u);CHKERRQ(ierr); ierr = VecAXPY(u,-1.0,b);CHKERRQ(ierr); ierr = VecNorm(u,NORM_INFINITY,&norm);CHKERRQ(ierr); /* if (norm > tol) { */ if (!rank) { ierr = PetscPrintf(PETSC_COMM_SELF,"MatSolve: rel residual %g/%g = %g, LU numfact %d\n",norm,Anorm,norm/Anorm,nfact);CHKERRQ(ierr); } /*} */ } } /* Free data structures */ ierr = MatDestroy(&A);CHKERRQ(ierr); ierr = MatDestroy(&F);CHKERRQ(ierr); ierr = ISDestroy(&perm);CHKERRQ(ierr); ierr = ISDestroy(&iperm);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = VecDestroy(&b);CHKERRQ(ierr); ierr = VecDestroy(&u);CHKERRQ(ierr); ierr = PetscFinalize(); return ierr; }
int main(int argc,char **args) { Vec x,y,b; Mat A; /* linear system matrix */ Mat sA,sC; /* symmetric part of the matrices */ PetscInt n,mbs=16,bs=1,nz=3,prob=1,i,j,col[3],block, row,Ii,J,n1,lvl; PetscErrorCode ierr; PetscMPIInt size; PetscReal norm2,tol=1.e-10,err[10]; PetscScalar neg_one = -1.0,four=4.0,value[3]; IS perm,cperm; PetscRandom rdm; PetscBool reorder = PETSC_FALSE,displ = PETSC_FALSE; MatFactorInfo factinfo; PetscBool equal; PetscBool TestAIJ = PETSC_FALSE,TestBAIJ = PETSC_TRUE; PetscInt TestShift=0; ierr = PetscInitialize(&argc,&args,(char*)0,help);if (ierr) return ierr; ierr = MPI_Comm_size(PETSC_COMM_WORLD,&size);CHKERRQ(ierr); if (size != 1) SETERRQ(PETSC_COMM_WORLD,1,"This is a uniprocessor example only!"); ierr = PetscOptionsGetInt(NULL,NULL,"-bs",&bs,NULL);CHKERRQ(ierr); ierr = PetscOptionsGetInt(NULL,NULL,"-mbs",&mbs,NULL);CHKERRQ(ierr); ierr = PetscOptionsGetBool(NULL,NULL,"-reorder",&reorder,NULL);CHKERRQ(ierr); ierr = PetscOptionsGetBool(NULL,NULL,"-testaij",&TestAIJ,NULL);CHKERRQ(ierr); ierr = PetscOptionsGetInt(NULL,NULL,"-testShift",&TestShift,NULL);CHKERRQ(ierr); ierr = PetscOptionsGetBool(NULL,NULL,"-displ",&displ,NULL);CHKERRQ(ierr); n = mbs*bs; if (TestAIJ) { /* A is in aij format */ ierr = MatCreateSeqAIJ(PETSC_COMM_WORLD,n,n,nz,NULL,&A);CHKERRQ(ierr); TestBAIJ = PETSC_FALSE; } else { /* A is in baij format */ ierr =MatCreateSeqBAIJ(PETSC_COMM_WORLD,bs,n,n,nz,NULL,&A);CHKERRQ(ierr); TestAIJ = PETSC_FALSE; } /* Assemble matrix */ if (bs == 1) { ierr = PetscOptionsGetInt(NULL,NULL,"-test_problem",&prob,NULL);CHKERRQ(ierr); if (prob == 1) { /* tridiagonal matrix */ value[0] = -1.0; value[1] = 2.0; value[2] = -1.0; for (i=1; i<n-1; i++) { col[0] = i-1; col[1] = i; col[2] = i+1; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); } i = n - 1; col[0]=0; col[1] = n - 2; col[2] = n - 1; value[0]= 0.1; value[1]=-1; value[2]=2; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); i = 0; col[0] = 0; col[1] = 1; col[2]=n-1; value[0] = 2.0; value[1] = -1.0; value[2]=0.1; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); } else if (prob ==2) { /* matrix for the five point stencil */ n1 = (PetscInt) (PetscSqrtReal((PetscReal)n) + 0.001); if (n1*n1 - n) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"sqrt(n) must be a positive interger!"); for (i=0; i<n1; i++) { for (j=0; j<n1; j++) { Ii = j + n1*i; if (i>0) { J = Ii - n1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } if (i<n1-1) { J = Ii + n1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } if (j>0) { J = Ii - 1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } if (j<n1-1) { J = Ii + 1; ierr = MatSetValues(A,1,&Ii,1,&J,&neg_one,INSERT_VALUES);CHKERRQ(ierr); } ierr = MatSetValues(A,1,&Ii,1,&Ii,&four,INSERT_VALUES);CHKERRQ(ierr); } } } } else { /* bs > 1 */ for (block=0; block<n/bs; block++) { /* diagonal blocks */ value[0] = -1.0; value[1] = 4.0; value[2] = -1.0; for (i=1+block*bs; i<bs-1+block*bs; i++) { col[0] = i-1; col[1] = i; col[2] = i+1; ierr = MatSetValues(A,1,&i,3,col,value,INSERT_VALUES);CHKERRQ(ierr); } i = bs - 1+block*bs; col[0] = bs - 2+block*bs; col[1] = bs - 1+block*bs; value[0]=-1.0; value[1]=4.0; ierr = MatSetValues(A,1,&i,2,col,value,INSERT_VALUES);CHKERRQ(ierr); i = 0+block*bs; col[0] = 0+block*bs; col[1] = 1+block*bs; value[0]=4.0; value[1] = -1.0; ierr = MatSetValues(A,1,&i,2,col,value,INSERT_VALUES);CHKERRQ(ierr); } /* off-diagonal blocks */ value[0]=-1.0; for (i=0; i<(n/bs-1)*bs; i++) { col[0]=i+bs; ierr = MatSetValues(A,1,&i,1,col,value,INSERT_VALUES);CHKERRQ(ierr); col[0]=i; row=i+bs; ierr = MatSetValues(A,1,&row,1,col,value,INSERT_VALUES);CHKERRQ(ierr); } } if (TestShift) { /* set diagonals in the 0-th block as 0 for testing shift numerical factor */ for (i=0; i<bs; i++) { row = i; col[0] = i; value[0] = 0.0; ierr = MatSetValues(A,1,&row,1,col,value,INSERT_VALUES);CHKERRQ(ierr); } } ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); /* Test MatConvert */ ierr = MatSetOption(A,MAT_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); ierr = MatConvert(A,MATSEQSBAIJ,MAT_INITIAL_MATRIX,&sA);CHKERRQ(ierr); ierr = MatMultEqual(A,sA,20,&equal);CHKERRQ(ierr); if (!equal) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"A != sA"); /* Test MatGetOwnershipRange() */ ierr = MatGetOwnershipRange(A,&Ii,&J);CHKERRQ(ierr); ierr = MatGetOwnershipRange(sA,&i,&j);CHKERRQ(ierr); if (i-Ii || j-J) { PetscPrintf(PETSC_COMM_SELF,"Error: MatGetOwnershipRange() in MatSBAIJ format\n");CHKERRQ(ierr); } /* Vectors */ ierr = PetscRandomCreate(PETSC_COMM_SELF,&rdm);CHKERRQ(ierr); ierr = PetscRandomSetFromOptions(rdm);CHKERRQ(ierr); ierr = VecCreateSeq(PETSC_COMM_SELF,n,&x);CHKERRQ(ierr); ierr = VecDuplicate(x,&b);CHKERRQ(ierr); ierr = VecDuplicate(x,&y);CHKERRQ(ierr); ierr = VecSetRandom(x,rdm);CHKERRQ(ierr); /* Test MatReordering() - not work on sbaij matrix */ if (reorder) { ierr = MatGetOrdering(A,MATORDERINGRCM,&perm,&cperm);CHKERRQ(ierr); } else { ierr = MatGetOrdering(A,MATORDERINGNATURAL,&perm,&cperm);CHKERRQ(ierr); } ierr = ISDestroy(&cperm);CHKERRQ(ierr); /* initialize factinfo */ ierr = MatFactorInfoInitialize(&factinfo);CHKERRQ(ierr); if (TestShift == 1) { factinfo.shifttype = (PetscReal)MAT_SHIFT_NONZERO; factinfo.shiftamount = 0.1; } else if (TestShift == 2) { factinfo.shifttype = (PetscReal)MAT_SHIFT_POSITIVE_DEFINITE; } /* Test MatCholeskyFactor(), MatICCFactor() */ /*------------------------------------------*/ /* Test aij matrix A */ if (TestAIJ) { if (displ) { ierr = PetscPrintf(PETSC_COMM_WORLD,"AIJ: \n");CHKERRQ(ierr); } i = 0; for (lvl=-1; lvl<10; lvl++) { if (lvl==-1) { /* Cholesky factor */ factinfo.fill = 5.0; ierr = MatGetFactor(A,MATSOLVERPETSC,MAT_FACTOR_CHOLESKY,&sC);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(sC,A,perm,&factinfo);CHKERRQ(ierr); } else { /* incomplete Cholesky factor */ factinfo.fill = 5.0; factinfo.levels = lvl; ierr = MatGetFactor(A,MATSOLVERPETSC,MAT_FACTOR_ICC,&sC);CHKERRQ(ierr); ierr = MatICCFactorSymbolic(sC,A,perm,&factinfo);CHKERRQ(ierr); } ierr = MatCholeskyFactorNumeric(sC,A,&factinfo);CHKERRQ(ierr); ierr = MatMult(A,x,b);CHKERRQ(ierr); ierr = MatSolve(sC,b,y);CHKERRQ(ierr); ierr = MatDestroy(&sC);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(y,neg_one,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm2);CHKERRQ(ierr); if (displ) { ierr = PetscPrintf(PETSC_COMM_WORLD," lvl: %D, error: %g\n", lvl,(double)norm2);CHKERRQ(ierr); } err[i++] = norm2; } } /* Test baij matrix A */ if (TestBAIJ) { if (displ) { ierr = PetscPrintf(PETSC_COMM_WORLD,"BAIJ: \n");CHKERRQ(ierr); } i = 0; for (lvl=-1; lvl<10; lvl++) { if (lvl==-1) { /* Cholesky factor */ factinfo.fill = 5.0; ierr = MatGetFactor(A,MATSOLVERPETSC,MAT_FACTOR_CHOLESKY,&sC);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(sC,A,perm,&factinfo);CHKERRQ(ierr); } else { /* incomplete Cholesky factor */ factinfo.fill = 5.0; factinfo.levels = lvl; ierr = MatGetFactor(A,MATSOLVERPETSC,MAT_FACTOR_ICC,&sC);CHKERRQ(ierr); ierr = MatICCFactorSymbolic(sC,A,perm,&factinfo);CHKERRQ(ierr); } ierr = MatCholeskyFactorNumeric(sC,A,&factinfo);CHKERRQ(ierr); ierr = MatMult(A,x,b);CHKERRQ(ierr); ierr = MatSolve(sC,b,y);CHKERRQ(ierr); ierr = MatDestroy(&sC);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(y,neg_one,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm2);CHKERRQ(ierr); if (displ) { ierr = PetscPrintf(PETSC_COMM_WORLD," lvl: %D, error: %g\n", lvl,(double)norm2);CHKERRQ(ierr); } err[i++] = norm2; } } /* Test sbaij matrix sA */ if (displ) { ierr = PetscPrintf(PETSC_COMM_WORLD,"SBAIJ: \n");CHKERRQ(ierr); } i = 0; for (lvl=-1; lvl<10; lvl++) { if (lvl==-1) { /* Cholesky factor */ factinfo.fill = 5.0; ierr = MatGetFactor(sA,MATSOLVERPETSC,MAT_FACTOR_CHOLESKY,&sC);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(sC,sA,perm,&factinfo);CHKERRQ(ierr); } else { /* incomplete Cholesky factor */ factinfo.fill = 5.0; factinfo.levels = lvl; ierr = MatGetFactor(sA,MATSOLVERPETSC,MAT_FACTOR_ICC,&sC);CHKERRQ(ierr); ierr = MatICCFactorSymbolic(sC,sA,perm,&factinfo);CHKERRQ(ierr); } ierr = MatCholeskyFactorNumeric(sC,sA,&factinfo);CHKERRQ(ierr); if (lvl==0 && bs==1) { /* Test inplace ICC(0) for sbaij sA - does not work for new datastructure */ /* Mat B; ierr = MatDuplicate(sA,MAT_COPY_VALUES,&B);CHKERRQ(ierr); ierr = MatICCFactor(B,perm,&factinfo);CHKERRQ(ierr); ierr = MatEqual(sC,B,&equal);CHKERRQ(ierr); if (!equal) { SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"in-place Cholesky factor != out-place Cholesky factor"); } ierr = MatDestroy(&B);CHKERRQ(ierr); */ } ierr = MatMult(sA,x,b);CHKERRQ(ierr); ierr = MatSolve(sC,b,y);CHKERRQ(ierr); /* Test MatSolves() */ if (bs == 1) { Vecs xx,bb; ierr = VecsCreateSeq(PETSC_COMM_SELF,n,4,&xx);CHKERRQ(ierr); ierr = VecsDuplicate(xx,&bb);CHKERRQ(ierr); ierr = MatSolves(sC,bb,xx);CHKERRQ(ierr); ierr = VecsDestroy(xx);CHKERRQ(ierr); ierr = VecsDestroy(bb);CHKERRQ(ierr); } ierr = MatDestroy(&sC);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(y,neg_one,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm2);CHKERRQ(ierr); if (displ) { ierr = PetscPrintf(PETSC_COMM_WORLD," lvl: %D, error: %g\n", lvl,(double)norm2);CHKERRQ(ierr); } err[i] -= norm2; if (err[i] > tol) SETERRQ2(PETSC_COMM_WORLD,PETSC_ERR_USER," level: %d, err: %g\n", lvl,(double)err[i]); } ierr = ISDestroy(&perm);CHKERRQ(ierr); ierr = MatDestroy(&A);CHKERRQ(ierr); ierr = MatDestroy(&sA);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = VecDestroy(&y);CHKERRQ(ierr); ierr = VecDestroy(&b);CHKERRQ(ierr); ierr = PetscRandomDestroy(&rdm);CHKERRQ(ierr); ierr = PetscFinalize(); return ierr; }
int main(int argc,char **args) { Mat C,F,Cpetsc,Csymm; Vec u,x,b,bpla; PetscErrorCode ierr; PetscMPIInt rank,nproc; PetscInt i,j,k,M = 10,m,nfact,nsolve,Istart,Iend,*im,*in,start,end; PetscScalar *array,rval; PetscReal norm,tol=1.e-12; IS perm,iperm; MatFactorInfo info; PetscRandom rand; PetscInitialize(&argc,&args,(char *)0,help); ierr = MPI_Comm_rank(PETSC_COMM_WORLD, &rank);CHKERRQ(ierr); ierr = MPI_Comm_size(PETSC_COMM_WORLD, &nproc);CHKERRQ(ierr); /* Test non-symmetric operations */ /*-------------------------------*/ /* Create a Plapack dense matrix C */ ierr = PetscOptionsGetInt(PETSC_NULL,"-M",&M,PETSC_NULL);CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&C);CHKERRQ(ierr); ierr = MatSetSizes(C,PETSC_DECIDE,PETSC_DECIDE,M,M);CHKERRQ(ierr); ierr = MatSetType(C,MATDENSE);CHKERRQ(ierr); ierr = MatSetFromOptions(C);CHKERRQ(ierr); ierr = MatSetUp(C);CHKERRQ(ierr); /* Create vectors */ ierr = MatGetOwnershipRange(C,&start,&end);CHKERRQ(ierr); m = end - start; /* printf("[%d] C - local size m: %d\n",rank,m); */ ierr = VecCreate(PETSC_COMM_WORLD,&x);CHKERRQ(ierr); ierr = VecSetSizes(x,m,PETSC_DECIDE);CHKERRQ(ierr); ierr = VecSetFromOptions(x);CHKERRQ(ierr); ierr = VecDuplicate(x,&b);CHKERRQ(ierr); ierr = VecDuplicate(x,&bpla);CHKERRQ(ierr); ierr = VecDuplicate(x,&u);CHKERRQ(ierr); /* save the true solution */ /* Create a petsc dense matrix Cpetsc */ ierr = PetscOptionsGetInt(PETSC_NULL,"-M",&M,PETSC_NULL);CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&Cpetsc);CHKERRQ(ierr); ierr = MatSetSizes(Cpetsc,m,m,M,M);CHKERRQ(ierr); ierr = MatSetType(Cpetsc,MATDENSE);CHKERRQ(ierr); ierr = MatMPIDenseSetPreallocation(Cpetsc,PETSC_NULL);CHKERRQ(ierr); ierr = MatSetFromOptions(Cpetsc);CHKERRQ(ierr); ierr = MatSetUp(Cpetsc);CHKERRQ(ierr); ierr = MatSetOption(Cpetsc,MAT_ROW_ORIENTED,PETSC_FALSE);CHKERRQ(ierr); ierr = MatSetOption(C,MAT_ROW_ORIENTED,PETSC_FALSE);CHKERRQ(ierr); /* Assembly */ /* PLAPACK doesn't support INSERT_VALUES mode, zero all entries before calling MatSetValues() */ ierr = MatZeroEntries(C);CHKERRQ(ierr); ierr = MatZeroEntries(Cpetsc);CHKERRQ(ierr); ierr = PetscRandomCreate(PETSC_COMM_WORLD,&rand);CHKERRQ(ierr); ierr = PetscRandomSetFromOptions(rand);CHKERRQ(ierr); ierr = MatGetOwnershipRange(C,&Istart,&Iend);CHKERRQ(ierr); /* printf(" [%d] C m: %d, Istart/end: %d %d\n",rank,m,Istart,Iend); */ ierr = PetscMalloc((m*M+1)*sizeof(PetscScalar),&array);CHKERRQ(ierr); ierr = PetscMalloc2(m,PetscInt,&im,M,PetscInt,&in);CHKERRQ(ierr); k = 0; for (j=0; j<M; j++){ /* column oriented! */ in[j] = j; for (i=0; i<m; i++){ im[i] = i+Istart; ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[k++] = rval; } } ierr = MatSetValues(Cpetsc,m,im,M,in,array,ADD_VALUES);CHKERRQ(ierr); ierr = MatSetValues(C,m,im,M,in,array,ADD_VALUES);CHKERRQ(ierr); ierr = PetscFree(array);CHKERRQ(ierr); ierr = PetscFree2(im,in);CHKERRQ(ierr); ierr = MatAssemblyBegin(Cpetsc,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(Cpetsc,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); /* if (!rank) {printf("main, Cpetsc: \n");} ierr = MatView(Cpetsc,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); */ ierr = MatGetOrdering(C,MATORDERINGNATURAL,&perm,&iperm);CHKERRQ(ierr); /* Test nonsymmetric MatMult() */ ierr = VecGetArray(x,&array);CHKERRQ(ierr); for (i=0; i<m; i++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[i] = rval; } ierr = VecRestoreArray(x,&array);CHKERRQ(ierr); ierr = MatMult(Cpetsc,x,b);CHKERRQ(ierr); ierr = MatMult(C,x,bpla);CHKERRQ(ierr); ierr = VecAXPY(bpla,-1.0,b);CHKERRQ(ierr); ierr = VecNorm(bpla,NORM_2,&norm);CHKERRQ(ierr); if (norm > 1.e-12 && !rank){ ierr = PetscPrintf(PETSC_COMM_SELF,"Nonsymmetric MatMult_Plapack error: |b_pla - b|= %g\n",norm);CHKERRQ(ierr); } /* Test LU Factorization */ if (nproc == 1){ ierr = MatGetFactor(C,MATSOLVERPETSC,MAT_FACTOR_LU,&F);CHKERRQ(ierr); } else { ierr = MatGetFactor(C,MATSOLVERPLAPACK,MAT_FACTOR_LU,&F);CHKERRQ(ierr); } ierr = MatLUFactorSymbolic(F,C,perm,iperm,&info);CHKERRQ(ierr); for (nfact = 0; nfact < 2; nfact++){ if (!rank) printf(" LU nfact %d\n",nfact); if (nfact>0){ /* change matrix value for testing repeated MatLUFactorNumeric() */ if (!rank){ i = j = 0; rval = nfact; ierr = MatSetValues(Cpetsc,1,&i,1,&j,&rval,ADD_VALUES);CHKERRQ(ierr); ierr = MatSetValues(C,1,&i,1,&j,&rval,ADD_VALUES);CHKERRQ(ierr); } else { /* PLAPACK seems requiring all processors call MatSetValues(), so we add 0.0 on processesses with rank>0! */ i = j = 0; rval = 0.0; ierr = MatSetValues(Cpetsc,1,&i,1,&j,&rval,ADD_VALUES);CHKERRQ(ierr); ierr = MatSetValues(C,1,&i,1,&j,&rval,ADD_VALUES);CHKERRQ(ierr); } ierr = MatAssemblyBegin(Cpetsc,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(Cpetsc,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); } ierr = MatLUFactorNumeric(F,C,&info);CHKERRQ(ierr); /* Test MatSolve() */ for (nsolve = 0; nsolve < 2; nsolve++){ ierr = VecGetArray(x,&array);CHKERRQ(ierr); for (i=0; i<m; i++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[i] = rval; /* array[i] = rank + 1; */ } ierr = VecRestoreArray(x,&array);CHKERRQ(ierr); ierr = VecCopy(x,u);CHKERRQ(ierr); ierr = MatMult(C,x,b);CHKERRQ(ierr); ierr = MatSolve(F,b,x);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(u,-1.0,x);CHKERRQ(ierr); /* u <- (-1.0)x + u */ ierr = VecNorm(u,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol){ if (!rank){ ierr = PetscPrintf(PETSC_COMM_SELF,"Error: Norm of error %g, LU nfact %d\n",norm,nfact);CHKERRQ(ierr); } } } } ierr = MatDestroy(&F);CHKERRQ(ierr); /* Test non-symmetric operations */ /*-------------------------------*/ /* Create a symmetric Plapack dense matrix Csymm */ ierr = MatCreate(PETSC_COMM_WORLD,&Csymm);CHKERRQ(ierr); ierr = MatSetSizes(Csymm,PETSC_DECIDE,PETSC_DECIDE,M,M);CHKERRQ(ierr); ierr = MatSetType(Csymm,MATDENSE);CHKERRQ(ierr); ierr = MatSetFromOptions(Csymm);CHKERRQ(ierr); ierr = MatSetUp(Csymm);CHKERRQ(ierr); ierr = MatSetOption(Csymm,MAT_ROW_ORIENTED,PETSC_FALSE);CHKERRQ(ierr); ierr = MatSetOption(Csymm,MAT_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); ierr = MatSetOption(Csymm,MAT_SYMMETRY_ETERNAL,PETSC_TRUE);CHKERRQ(ierr); ierr = MatZeroEntries(Csymm);CHKERRQ(ierr); ierr = MatZeroEntries(Cpetsc);CHKERRQ(ierr); for (i=Istart; i<Iend; i++){ for (j=0; j<=i; j++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); ierr = MatSetValues(Cpetsc,1,&i,1,&j,&rval,ADD_VALUES);CHKERRQ(ierr); ierr = MatSetValues(Csymm,1,&i,1,&j,&rval,ADD_VALUES);CHKERRQ(ierr); if (j<i){ /* Although PLAPACK only requires lower triangular entries, we must add all the entries. MatSetValues_Plapack() will ignore the upper triangular entries AFTER an index map! */ ierr = MatSetValues(Cpetsc,1,&j,1,&i,&rval,ADD_VALUES);CHKERRQ(ierr); ierr = MatSetValues(Csymm,1,&j,1,&i,&rval,ADD_VALUES);CHKERRQ(ierr); } } } ierr = MatAssemblyBegin(Cpetsc,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(Cpetsc,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyBegin(Csymm,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(Csymm,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); /* Test symmetric MatMult() */ ierr = VecGetArray(x,&array);CHKERRQ(ierr); for (i=0; i<m; i++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[i] = rval; } ierr = VecRestoreArray(x,&array);CHKERRQ(ierr); ierr = MatMult(Cpetsc,x,b);CHKERRQ(ierr); ierr = MatMult(Csymm,x,bpla);CHKERRQ(ierr); ierr = VecAXPY(bpla,-1.0,b);CHKERRQ(ierr); ierr = VecNorm(bpla,NORM_2,&norm);CHKERRQ(ierr); if (norm > 1.e-12 && !rank){ ierr = PetscPrintf(PETSC_COMM_SELF,"Symmetric MatMult_Plapack error: |b_pla - b|= %g\n",norm);CHKERRQ(ierr); } /* Test Cholesky Factorization */ ierr = MatShift(Csymm,M);CHKERRQ(ierr); /* make Csymm positive definite */ if (nproc == 1){ ierr = MatGetFactor(Csymm,MATSOLVERPETSC,MAT_FACTOR_CHOLESKY,&F);CHKERRQ(ierr); } else { ierr = MatGetFactor(Csymm,MATSOLVERPLAPACK,MAT_FACTOR_CHOLESKY,&F);CHKERRQ(ierr); } ierr = MatCholeskyFactorSymbolic(F,Csymm,perm,&info);CHKERRQ(ierr); for (nfact = 0; nfact < 2; nfact++){ if (!rank) printf(" Cholesky nfact %d\n",nfact); ierr = MatCholeskyFactorNumeric(F,Csymm,&info);CHKERRQ(ierr); /* Test MatSolve() */ for (nsolve = 0; nsolve < 2; nsolve++){ ierr = VecGetArray(x,&array);CHKERRQ(ierr); for (i=0; i<m; i++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[i] = rval; } ierr = VecRestoreArray(x,&array);CHKERRQ(ierr); ierr = VecCopy(x,u);CHKERRQ(ierr); ierr = MatMult(Csymm,x,b);CHKERRQ(ierr); ierr = MatSolve(F,b,x);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(u,-1.0,x);CHKERRQ(ierr); /* u <- (-1.0)x + u */ ierr = VecNorm(u,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol){ if (!rank){ ierr = PetscPrintf(PETSC_COMM_SELF,"Error: Norm of error %g, Cholesky nfact %d\n",norm,nfact);CHKERRQ(ierr); } } } } ierr = MatDestroy(&F);CHKERRQ(ierr); /* Free data structures */ ierr = ISDestroy(&perm);CHKERRQ(ierr); ierr = ISDestroy(&iperm);CHKERRQ(ierr); ierr = PetscRandomDestroy(&rand);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = VecDestroy(&b);CHKERRQ(ierr); ierr = VecDestroy(&bpla);CHKERRQ(ierr); ierr = VecDestroy(&u);CHKERRQ(ierr); ierr = MatDestroy(&Cpetsc);CHKERRQ(ierr); ierr = MatDestroy(&C);CHKERRQ(ierr); ierr = MatDestroy(&Csymm);CHKERRQ(ierr); ierr = PetscFinalize(); return 0; }
PetscErrorCode MatSOR_BlockMat_Symmetric(Mat A,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) { Mat_BlockMat *a = (Mat_BlockMat*)A->data; PetscScalar *x; const Mat *v; const PetscScalar *b; PetscErrorCode ierr; PetscInt n = A->cmap->n,i,mbs = n/A->rmap->bs,j,bs = A->rmap->bs; const PetscInt *idx; IS row,col; MatFactorInfo info; Vec left = a->left,right = a->right, middle = a->middle; Mat *diag; PetscFunctionBegin; its = its*lits; if (its <= 0) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Relaxation requires global its %D and local its %D both positive",its,lits); if (flag & SOR_EISENSTAT) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support yet for Eisenstat"); if (omega != 1.0) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support yet for omega not equal to 1.0"); if (fshift) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support yet for fshift"); if ((flag & SOR_BACKWARD_SWEEP || flag & SOR_LOCAL_BACKWARD_SWEEP) && !(flag & SOR_FORWARD_SWEEP || flag & SOR_LOCAL_FORWARD_SWEEP)) { SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cannot do backward sweep without forward sweep"); } if (!a->diags) { ierr = PetscMalloc1(mbs,&a->diags);CHKERRQ(ierr); ierr = MatFactorInfoInitialize(&info);CHKERRQ(ierr); for (i=0; i<mbs; i++) { ierr = MatGetOrdering(a->a[a->diag[i]], MATORDERINGND,&row,&col);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(a->diags[i],a->a[a->diag[i]],row,&info);CHKERRQ(ierr); ierr = MatCholeskyFactorNumeric(a->diags[i],a->a[a->diag[i]],&info);CHKERRQ(ierr); ierr = ISDestroy(&row);CHKERRQ(ierr); ierr = ISDestroy(&col);CHKERRQ(ierr); } ierr = VecDuplicate(bb,&a->workb);CHKERRQ(ierr); } diag = a->diags; ierr = VecSet(xx,0.0);CHKERRQ(ierr); ierr = VecGetArray(xx,&x);CHKERRQ(ierr); /* copy right hand side because it must be modified during iteration */ ierr = VecCopy(bb,a->workb);CHKERRQ(ierr); ierr = VecGetArrayRead(a->workb,&b);CHKERRQ(ierr); /* need to add code for when initial guess is zero, see MatSOR_SeqAIJ */ while (its--) { if (flag & SOR_FORWARD_SWEEP || flag & SOR_LOCAL_FORWARD_SWEEP) { for (i=0; i<mbs; i++) { n = a->i[i+1] - a->i[i] - 1; idx = a->j + a->i[i] + 1; v = a->a + a->i[i] + 1; ierr = VecSet(left,0.0);CHKERRQ(ierr); for (j=0; j<n; j++) { ierr = VecPlaceArray(right,x + idx[j]*bs);CHKERRQ(ierr); ierr = MatMultAdd(v[j],right,left,left);CHKERRQ(ierr); ierr = VecResetArray(right);CHKERRQ(ierr); } ierr = VecPlaceArray(right,b + i*bs);CHKERRQ(ierr); ierr = VecAYPX(left,-1.0,right);CHKERRQ(ierr); ierr = VecResetArray(right);CHKERRQ(ierr); ierr = VecPlaceArray(right,x + i*bs);CHKERRQ(ierr); ierr = MatSolve(diag[i],left,right);CHKERRQ(ierr); /* now adjust right hand side, see MatSOR_SeqSBAIJ */ for (j=0; j<n; j++) { ierr = MatMultTranspose(v[j],right,left);CHKERRQ(ierr); ierr = VecPlaceArray(middle,b + idx[j]*bs);CHKERRQ(ierr); ierr = VecAXPY(middle,-1.0,left);CHKERRQ(ierr); ierr = VecResetArray(middle);CHKERRQ(ierr); } ierr = VecResetArray(right);CHKERRQ(ierr); } } if (flag & SOR_BACKWARD_SWEEP || flag & SOR_LOCAL_BACKWARD_SWEEP) { for (i=mbs-1; i>=0; i--) { n = a->i[i+1] - a->i[i] - 1; idx = a->j + a->i[i] + 1; v = a->a + a->i[i] + 1; ierr = VecSet(left,0.0);CHKERRQ(ierr); for (j=0; j<n; j++) { ierr = VecPlaceArray(right,x + idx[j]*bs);CHKERRQ(ierr); ierr = MatMultAdd(v[j],right,left,left);CHKERRQ(ierr); ierr = VecResetArray(right);CHKERRQ(ierr); } ierr = VecPlaceArray(right,b + i*bs);CHKERRQ(ierr); ierr = VecAYPX(left,-1.0,right);CHKERRQ(ierr); ierr = VecResetArray(right);CHKERRQ(ierr); ierr = VecPlaceArray(right,x + i*bs);CHKERRQ(ierr); ierr = MatSolve(diag[i],left,right);CHKERRQ(ierr); ierr = VecResetArray(right);CHKERRQ(ierr); } } } ierr = VecRestoreArray(xx,&x);CHKERRQ(ierr); ierr = VecRestoreArrayRead(a->workb,&b);CHKERRQ(ierr); PetscFunctionReturn(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); }
int main(int argc,char **args) { Mat C,C1,F; Vec u,x,b; PetscErrorCode ierr; PetscMPIInt rank,nproc; PetscInt i,M = 10,m,n,nfact,nsolve; PetscScalar *array,rval; PetscReal norm,tol=1.e-12; IS perm,iperm; MatFactorInfo info; PetscRandom rand; PetscTruth flg; PetscInitialize(&argc,&args,(char *)0,help); ierr = MPI_Comm_rank(PETSC_COMM_WORLD, &rank);CHKERRQ(ierr); ierr = MPI_Comm_size(PETSC_COMM_WORLD, &nproc);CHKERRQ(ierr); /* Create matrix and vectors */ ierr = PetscOptionsGetInt(PETSC_NULL,"-M",&M,PETSC_NULL);CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&C);CHKERRQ(ierr); ierr = MatSetSizes(C,PETSC_DECIDE,PETSC_DECIDE,M,M);CHKERRQ(ierr); ierr = MatSetType(C,MATDENSE);CHKERRQ(ierr); ierr = MatSetFromOptions(C);CHKERRQ(ierr); ierr = MatGetLocalSize(C,&m,&n);CHKERRQ(ierr); if (m != n) SETERRQ2(PETSC_ERR_ARG_WRONG,"Matrix local size m %d must equal n %d",m,n); ierr = VecCreate(PETSC_COMM_WORLD,&x);CHKERRQ(ierr); ierr = VecSetSizes(x,n,PETSC_DECIDE);CHKERRQ(ierr); ierr = VecSetFromOptions(x);CHKERRQ(ierr); ierr = VecDuplicate(x,&b);CHKERRQ(ierr); ierr = VecDuplicate(x,&u);CHKERRQ(ierr); /* save the true solution */ /* Assembly */ ierr = PetscRandomCreate(PETSC_COMM_WORLD,&rand);CHKERRQ(ierr); ierr = PetscRandomSetFromOptions(rand);CHKERRQ(ierr); ierr = MatGetArray(C,&array);CHKERRQ(ierr); for (i=0; i<m*M; i++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[i] = rval; } ierr = MatRestoreArray(C,&array);CHKERRQ(ierr); ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); /*if (!rank) {printf("main, C: \n");} ierr = MatView(C,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); */ /* Test MatDuplicate() */ ierr = MatDuplicate(C,MAT_COPY_VALUES,&C1);CHKERRQ(ierr); ierr = MatEqual(C,C1,&flg);CHKERRQ(ierr); if (!flg){ SETERRQ(PETSC_ERR_ARG_WRONG,"Duplicate C1 != C"); } /* Test LU Factorization */ ierr = MatGetOrdering(C1,MATORDERING_NATURAL,&perm,&iperm);CHKERRQ(ierr); if (nproc == 1){ ierr = MatGetFactor(C1,MAT_SOLVER_PETSC,MAT_FACTOR_LU,&F);CHKERRQ(ierr); } else { ierr = MatGetFactor(C1,MAT_SOLVER_PLAPACK,MAT_FACTOR_LU,&F);CHKERRQ(ierr); } ierr = MatLUFactorSymbolic(F,C1,perm,iperm,&info);CHKERRQ(ierr); for (nfact = 0; nfact < 2; nfact++){ if (!rank) printf(" LU nfact %d\n",nfact); ierr = MatLUFactorNumeric(F,C1,&info);CHKERRQ(ierr); /* Test MatSolve() */ for (nsolve = 0; nsolve < 5; nsolve++){ ierr = VecGetArray(x,&array);CHKERRQ(ierr); for (i=0; i<m; i++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[i] = rval; } ierr = VecRestoreArray(x,&array);CHKERRQ(ierr); ierr = VecCopy(x,u);CHKERRQ(ierr); ierr = MatMult(C,x,b);CHKERRQ(ierr); ierr = MatSolve(F,b,x);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(u,-1.0,x);CHKERRQ(ierr); /* u <- (-1.0)x + u */ ierr = VecNorm(u,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol){ if (!rank){ ierr = PetscPrintf(PETSC_COMM_SELF,"Error: Norm of error %g, LU nfact %d\n",norm,nfact);CHKERRQ(ierr); } } } } ierr = MatDestroy(C1);CHKERRQ(ierr); ierr = MatDestroy(F);CHKERRQ(ierr); /* Test Cholesky Factorization */ ierr = MatTranspose(C,MAT_INITIAL_MATRIX,&C1);CHKERRQ(ierr); /* C1 = C^T */ ierr = MatAXPY(C,1.0,C1,SAME_NONZERO_PATTERN);CHKERRQ(ierr); /* make C symmetric: C <- C + C^T */ ierr = MatShift(C,M);CHKERRQ(ierr); /* make C positive definite */ ierr = MatDestroy(C1);CHKERRQ(ierr); ierr = MatSetOption(C,MAT_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); ierr = MatSetOption(C,MAT_SYMMETRY_ETERNAL,PETSC_TRUE);CHKERRQ(ierr); if (nproc == 1){ ierr = MatGetFactor(C,MAT_SOLVER_PETSC,MAT_FACTOR_CHOLESKY,&F);CHKERRQ(ierr); } else { ierr = MatGetFactor(C,MAT_SOLVER_PLAPACK,MAT_FACTOR_CHOLESKY,&F);CHKERRQ(ierr); } ierr = MatCholeskyFactorSymbolic(F,C,perm,&info);CHKERRQ(ierr); for (nfact = 0; nfact < 2; nfact++){ if (!rank) printf(" Cholesky nfact %d\n",nfact); ierr = MatCholeskyFactorNumeric(F,C,&info);CHKERRQ(ierr); /* Test MatSolve() */ for (nsolve = 0; nsolve < 5; nsolve++){ ierr = VecGetArray(x,&array);CHKERRQ(ierr); for (i=0; i<m; i++){ ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[i] = rval; } ierr = VecRestoreArray(x,&array);CHKERRQ(ierr); ierr = VecCopy(x,u);CHKERRQ(ierr); ierr = MatMult(C,x,b);CHKERRQ(ierr); ierr = MatSolve(F,b,x);CHKERRQ(ierr); /* Check the error */ ierr = VecAXPY(u,-1.0,x);CHKERRQ(ierr); /* u <- (-1.0)x + u */ ierr = VecNorm(u,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol){ if (!rank){ ierr = PetscPrintf(PETSC_COMM_SELF,"Error: Norm of error %g, Cholesky nfact %d\n",norm,nfact);CHKERRQ(ierr); } } } } ierr = MatDestroy(F);CHKERRQ(ierr); /* Free data structures */ ierr = PetscRandomDestroy(rand);CHKERRQ(ierr); ierr = ISDestroy(perm);CHKERRQ(ierr); ierr = ISDestroy(iperm);CHKERRQ(ierr); ierr = VecDestroy(x);CHKERRQ(ierr); ierr = VecDestroy(b);CHKERRQ(ierr); ierr = VecDestroy(u);CHKERRQ(ierr); ierr = MatDestroy(C);CHKERRQ(ierr); ierr = PetscFinalize();CHKERRQ(ierr); return 0; }
int main(int argc,char **args) { Mat A,RHS,C,F,X,S; Vec u,x,b; Vec xschur,bschur,uschur; IS is_schur; PetscErrorCode ierr; PetscMPIInt size; PetscInt isolver=0,size_schur,m,n,nfact,nsolve,nrhs; PetscReal norm,tol=PETSC_SQRT_MACHINE_EPSILON; PetscRandom rand; PetscBool data_provided,herm,symm,use_lu; PetscReal sratio = 5.1/12.; PetscViewer fd; /* viewer */ char solver[256]; char file[PETSC_MAX_PATH_LEN]; /* input file name */ PetscInitialize(&argc,&args,(char*)0,help); ierr = MPI_Comm_size(PETSC_COMM_WORLD, &size);CHKERRQ(ierr); if (size > 1) SETERRQ(PETSC_COMM_WORLD,1,"This is a uniprocessor test"); /* Determine which type of solver we want to test for */ herm = PETSC_FALSE; symm = PETSC_FALSE; ierr = PetscOptionsGetBool(NULL,NULL,"-symmetric_solve",&symm,NULL);CHKERRQ(ierr); ierr = PetscOptionsGetBool(NULL,NULL,"-hermitian_solve",&herm,NULL);CHKERRQ(ierr); if (herm) symm = PETSC_TRUE; /* Determine file from which we read the matrix A */ ierr = PetscOptionsGetString(NULL,NULL,"-f",file,PETSC_MAX_PATH_LEN,&data_provided);CHKERRQ(ierr); if (!data_provided) { /* get matrices from PETSc distribution */ sprintf(file,PETSC_DIR); ierr = PetscStrcat(file,"/share/petsc/datafiles/matrices/");CHKERRQ(ierr); if (symm) { #if defined (PETSC_USE_COMPLEX) ierr = PetscStrcat(file,"hpd-complex-");CHKERRQ(ierr); #else ierr = PetscStrcat(file,"spd-real-");CHKERRQ(ierr); #endif } else { #if defined (PETSC_USE_COMPLEX) ierr = PetscStrcat(file,"nh-complex-");CHKERRQ(ierr); #else ierr = PetscStrcat(file,"ns-real-");CHKERRQ(ierr); #endif } #if defined(PETSC_USE_64BIT_INDICES) ierr = PetscStrcat(file,"int64-");CHKERRQ(ierr); #else ierr = PetscStrcat(file,"int32-");CHKERRQ(ierr); #endif #if defined (PETSC_USE_REAL_SINGLE) ierr = PetscStrcat(file,"float32");CHKERRQ(ierr); #else ierr = PetscStrcat(file,"float64");CHKERRQ(ierr); #endif } /* Load matrix A */ ierr = PetscViewerBinaryOpen(PETSC_COMM_WORLD,file,FILE_MODE_READ,&fd);CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&A);CHKERRQ(ierr); ierr = MatLoad(A,fd);CHKERRQ(ierr); ierr = PetscViewerDestroy(&fd);CHKERRQ(ierr); ierr = MatGetSize(A,&m,&n);CHKERRQ(ierr); if (m != n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ, "This example is not intended for rectangular matrices (%d, %d)", m, n); /* Create dense matrix C and X; C holds true solution with identical colums */ nrhs = 2; ierr = PetscOptionsGetInt(NULL,NULL,"-nrhs",&nrhs,NULL);CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&C);CHKERRQ(ierr); ierr = MatSetSizes(C,m,PETSC_DECIDE,PETSC_DECIDE,nrhs);CHKERRQ(ierr); ierr = MatSetType(C,MATDENSE);CHKERRQ(ierr); ierr = MatSetFromOptions(C);CHKERRQ(ierr); ierr = MatSetUp(C);CHKERRQ(ierr); ierr = PetscRandomCreate(PETSC_COMM_WORLD,&rand);CHKERRQ(ierr); ierr = PetscRandomSetFromOptions(rand);CHKERRQ(ierr); ierr = MatSetRandom(C,rand);CHKERRQ(ierr); ierr = MatDuplicate(C,MAT_DO_NOT_COPY_VALUES,&X);CHKERRQ(ierr); /* Create vectors */ ierr = VecCreate(PETSC_COMM_WORLD,&x);CHKERRQ(ierr); ierr = VecSetSizes(x,n,PETSC_DECIDE);CHKERRQ(ierr); ierr = VecSetFromOptions(x);CHKERRQ(ierr); ierr = VecDuplicate(x,&b);CHKERRQ(ierr); ierr = VecDuplicate(x,&u);CHKERRQ(ierr); /* save the true solution */ ierr = PetscOptionsGetInt(NULL,NULL,"-solver",&isolver,NULL);CHKERRQ(ierr); switch (isolver) { #if defined(PETSC_HAVE_MUMPS) case 0: ierr = PetscStrcpy(solver,MATSOLVERMUMPS);CHKERRQ(ierr); break; #endif #if defined(PETSC_HAVE_MKL_PARDISO) case 1: ierr = PetscStrcpy(solver,MATSOLVERMKL_PARDISO);CHKERRQ(ierr); break; #endif default: ierr = PetscStrcpy(solver,MATSOLVERPETSC);CHKERRQ(ierr); break; } #if defined (PETSC_USE_COMPLEX) if (isolver == 0 && symm && !data_provided) { /* MUMPS (5.0.0) does not have support for hermitian matrices, so make them symmetric */ PetscScalar im = PetscSqrtScalar((PetscScalar)-1.); PetscScalar val = -1.0; val = val + im; ierr = MatSetValue(A,1,0,val,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); } #endif ierr = PetscOptionsGetReal(NULL,NULL,"-schur_ratio",&sratio,NULL);CHKERRQ(ierr); if (sratio < 0. || sratio > 1.) { SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ, "Invalid ratio for schur degrees of freedom %f", sratio); } size_schur = (PetscInt)(sratio*m); ierr = PetscPrintf(PETSC_COMM_SELF,"Solving with %s: nrhs %d, sym %d, herm %d, size schur %d, size mat %d\n",solver,nrhs,symm,herm,size_schur,m);CHKERRQ(ierr); /* Test LU/Cholesky Factorization */ use_lu = PETSC_FALSE; if (!symm) use_lu = PETSC_TRUE; #if defined (PETSC_USE_COMPLEX) if (isolver == 1) use_lu = PETSC_TRUE; #endif if (herm && !use_lu) { /* test also conversion routines inside the solver packages */ ierr = MatSetOption(A,MAT_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); ierr = MatConvert(A,MATSEQSBAIJ,MAT_INPLACE_MATRIX,&A);CHKERRQ(ierr); } if (use_lu) { ierr = MatGetFactor(A,solver,MAT_FACTOR_LU,&F);CHKERRQ(ierr); } else { if (herm) { ierr = MatSetOption(A,MAT_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); ierr = MatSetOption(A,MAT_SPD,PETSC_TRUE);CHKERRQ(ierr); } else { ierr = MatSetOption(A,MAT_SYMMETRIC,PETSC_TRUE);CHKERRQ(ierr); ierr = MatSetOption(A,MAT_SPD,PETSC_FALSE);CHKERRQ(ierr); } ierr = MatGetFactor(A,solver,MAT_FACTOR_CHOLESKY,&F);CHKERRQ(ierr); } ierr = ISCreateStride(PETSC_COMM_SELF,size_schur,m-size_schur,1,&is_schur);CHKERRQ(ierr); ierr = MatFactorSetSchurIS(F,is_schur);CHKERRQ(ierr); ierr = ISDestroy(&is_schur);CHKERRQ(ierr); if (use_lu) { ierr = MatLUFactorSymbolic(F,A,NULL,NULL,NULL);CHKERRQ(ierr); } else { ierr = MatCholeskyFactorSymbolic(F,A,NULL,NULL);CHKERRQ(ierr); } for (nfact = 0; nfact < 3; nfact++) { Mat AD; if (!nfact) { ierr = VecSetRandom(x,rand);CHKERRQ(ierr); if (symm && herm) { ierr = VecAbs(x);CHKERRQ(ierr); } ierr = MatDiagonalSet(A,x,ADD_VALUES);CHKERRQ(ierr); } if (use_lu) { ierr = MatLUFactorNumeric(F,A,NULL);CHKERRQ(ierr); } else { ierr = MatCholeskyFactorNumeric(F,A,NULL);CHKERRQ(ierr); } ierr = MatFactorCreateSchurComplement(F,&S);CHKERRQ(ierr); ierr = MatCreateVecs(S,&xschur,&bschur);CHKERRQ(ierr); ierr = VecDuplicate(xschur,&uschur);CHKERRQ(ierr); if (nfact == 1) { ierr = MatFactorInvertSchurComplement(F);CHKERRQ(ierr); } for (nsolve = 0; nsolve < 2; nsolve++) { ierr = VecSetRandom(x,rand);CHKERRQ(ierr); ierr = VecCopy(x,u);CHKERRQ(ierr); if (nsolve) { ierr = MatMult(A,x,b);CHKERRQ(ierr); ierr = MatSolve(F,b,x);CHKERRQ(ierr); } else { ierr = MatMultTranspose(A,x,b);CHKERRQ(ierr); ierr = MatSolveTranspose(F,b,x);CHKERRQ(ierr); } /* Check the error */ ierr = VecAXPY(u,-1.0,x);CHKERRQ(ierr); /* u <- (-1.0)x + u */ ierr = VecNorm(u,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol) { PetscReal resi; if (nsolve) { ierr = MatMult(A,x,u);CHKERRQ(ierr); /* u = A*x */ } else { ierr = MatMultTranspose(A,x,u);CHKERRQ(ierr); /* u = A*x */ } ierr = VecAXPY(u,-1.0,b);CHKERRQ(ierr); /* u <- (-1.0)b + u */ ierr = VecNorm(u,NORM_2,&resi);CHKERRQ(ierr); if (nsolve) { ierr = PetscPrintf(PETSC_COMM_SELF,"(f %d, s %d) MatSolve error: Norm of error %g, residual %f\n",nfact,nsolve,norm,resi);CHKERRQ(ierr); } else { ierr = PetscPrintf(PETSC_COMM_SELF,"(f %d, s %d) MatSolveTranspose error: Norm of error %g, residual %f\n",nfact,nsolve,norm,resi);CHKERRQ(ierr); } } ierr = VecSetRandom(xschur,rand);CHKERRQ(ierr); ierr = VecCopy(xschur,uschur);CHKERRQ(ierr); if (nsolve) { ierr = MatMult(S,xschur,bschur);CHKERRQ(ierr); ierr = MatFactorSolveSchurComplement(F,bschur,xschur);CHKERRQ(ierr); } else { ierr = MatMultTranspose(S,xschur,bschur);CHKERRQ(ierr); ierr = MatFactorSolveSchurComplementTranspose(F,bschur,xschur);CHKERRQ(ierr); } /* Check the error */ ierr = VecAXPY(uschur,-1.0,xschur);CHKERRQ(ierr); /* u <- (-1.0)x + u */ ierr = VecNorm(uschur,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol) { PetscReal resi; if (nsolve) { ierr = MatMult(S,xschur,uschur);CHKERRQ(ierr); /* u = A*x */ } else { ierr = MatMultTranspose(S,xschur,uschur);CHKERRQ(ierr); /* u = A*x */ } ierr = VecAXPY(uschur,-1.0,bschur);CHKERRQ(ierr); /* u <- (-1.0)b + u */ ierr = VecNorm(uschur,NORM_2,&resi);CHKERRQ(ierr); if (nsolve) { ierr = PetscPrintf(PETSC_COMM_SELF,"(f %d, s %d) MatFactorSolveSchurComplement error: Norm of error %g, residual %f\n",nfact,nsolve,norm,resi);CHKERRQ(ierr); } else { ierr = PetscPrintf(PETSC_COMM_SELF,"(f %d, s %d) MatFactorSolveSchurComplementTranspose error: Norm of error %g, residual %f\n",nfact,nsolve,norm,resi);CHKERRQ(ierr); } } } ierr = MatConvert(A,MATSEQAIJ,MAT_INITIAL_MATRIX,&AD); if (!nfact) { ierr = MatMatMult(AD,C,MAT_INITIAL_MATRIX,2.0,&RHS);CHKERRQ(ierr); } else { ierr = MatMatMult(AD,C,MAT_REUSE_MATRIX,2.0,&RHS);CHKERRQ(ierr); } ierr = MatDestroy(&AD);CHKERRQ(ierr); for (nsolve = 0; nsolve < 2; nsolve++) { ierr = MatMatSolve(F,RHS,X);CHKERRQ(ierr); /* Check the error */ ierr = MatAXPY(X,-1.0,C,SAME_NONZERO_PATTERN);CHKERRQ(ierr); ierr = MatNorm(X,NORM_FROBENIUS,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_SELF,"(f %D, s %D) MatMatSolve: Norm of error %g\n",nfact,nsolve,norm);CHKERRQ(ierr); } } ierr = MatDestroy(&S);CHKERRQ(ierr); ierr = VecDestroy(&xschur);CHKERRQ(ierr); ierr = VecDestroy(&bschur);CHKERRQ(ierr); ierr = VecDestroy(&uschur);CHKERRQ(ierr); } /* Free data structures */ ierr = MatDestroy(&A);CHKERRQ(ierr); ierr = MatDestroy(&C);CHKERRQ(ierr); ierr = MatDestroy(&F);CHKERRQ(ierr); ierr = MatDestroy(&X);CHKERRQ(ierr); ierr = MatDestroy(&RHS);CHKERRQ(ierr); ierr = PetscRandomDestroy(&rand);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = VecDestroy(&b);CHKERRQ(ierr); ierr = VecDestroy(&u);CHKERRQ(ierr); ierr = PetscFinalize(); return 0; }
int main(int argc,char **argv) { Mat A,F,B,X,C,Aher,G; Vec b,x,c,d,e; PetscErrorCode ierr; PetscInt m = 5,n,p,i,j,nrows,ncols; PetscScalar *v,*barray,rval; PetscReal norm,tol=1.e-12; PetscMPIInt size,rank; PetscRandom rand; const PetscInt *rows,*cols; IS isrows,iscols; PetscBool mats_view=PETSC_FALSE; MatFactorInfo finfo; PetscInitialize(&argc,&argv,(char*) 0,help); ierr = MPI_Comm_rank(PETSC_COMM_WORLD,&rank);CHKERRQ(ierr); ierr = MPI_Comm_size(PETSC_COMM_WORLD,&size);CHKERRQ(ierr); ierr = PetscRandomCreate(PETSC_COMM_WORLD,&rand);CHKERRQ(ierr); ierr = PetscRandomSetFromOptions(rand);CHKERRQ(ierr); /* Get local dimensions of matrices */ ierr = PetscOptionsGetInt(NULL,"-m",&m,NULL);CHKERRQ(ierr); n = m; ierr = PetscOptionsGetInt(NULL,"-n",&n,NULL);CHKERRQ(ierr); p = m/2; ierr = PetscOptionsGetInt(NULL,"-p",&p,NULL);CHKERRQ(ierr); ierr = PetscOptionsHasName(NULL,"-mats_view",&mats_view);CHKERRQ(ierr); /* Create matrix A */ ierr = PetscPrintf(PETSC_COMM_WORLD," Create Elemental matrix A\n");CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&A);CHKERRQ(ierr); ierr = MatSetSizes(A,m,n,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); ierr = MatSetType(A,MATELEMENTAL);CHKERRQ(ierr); ierr = MatSetFromOptions(A);CHKERRQ(ierr); ierr = MatSetUp(A);CHKERRQ(ierr); /* Set local matrix entries */ ierr = MatGetOwnershipIS(A,&isrows,&iscols);CHKERRQ(ierr); ierr = ISGetLocalSize(isrows,&nrows);CHKERRQ(ierr); ierr = ISGetIndices(isrows,&rows);CHKERRQ(ierr); ierr = ISGetLocalSize(iscols,&ncols);CHKERRQ(ierr); ierr = ISGetIndices(iscols,&cols);CHKERRQ(ierr); ierr = PetscMalloc1(nrows*ncols,&v);CHKERRQ(ierr); for (i=0; i<nrows; i++) { for (j=0; j<ncols; j++) { ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); v[i*ncols+j] = rval; } } ierr = MatSetValues(A,nrows,rows,ncols,cols,v,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = ISRestoreIndices(isrows,&rows);CHKERRQ(ierr); ierr = ISRestoreIndices(iscols,&cols);CHKERRQ(ierr); ierr = ISDestroy(&isrows);CHKERRQ(ierr); ierr = ISDestroy(&iscols);CHKERRQ(ierr); ierr = PetscFree(v);CHKERRQ(ierr); if (mats_view) { ierr = PetscPrintf(PETSC_COMM_WORLD, "A: nrows %d, m %d; ncols %d, n %d\n",nrows,m,ncols,n);CHKERRQ(ierr); ierr = MatView(A,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); } /* Create rhs matrix B */ ierr = PetscPrintf(PETSC_COMM_WORLD," Create rhs matrix B\n");CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&B);CHKERRQ(ierr); ierr = MatSetSizes(B,m,p,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); ierr = MatSetType(B,MATELEMENTAL);CHKERRQ(ierr); ierr = MatSetFromOptions(B);CHKERRQ(ierr); ierr = MatSetUp(B);CHKERRQ(ierr); ierr = MatGetOwnershipIS(B,&isrows,&iscols);CHKERRQ(ierr); ierr = ISGetLocalSize(isrows,&nrows);CHKERRQ(ierr); ierr = ISGetIndices(isrows,&rows);CHKERRQ(ierr); ierr = ISGetLocalSize(iscols,&ncols);CHKERRQ(ierr); ierr = ISGetIndices(iscols,&cols);CHKERRQ(ierr); ierr = PetscMalloc1(nrows*ncols,&v);CHKERRQ(ierr); for (i=0; i<nrows; i++) { for (j=0; j<ncols; j++) { ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); v[i*ncols+j] = rval; } } ierr = MatSetValues(B,nrows,rows,ncols,cols,v,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = ISRestoreIndices(isrows,&rows);CHKERRQ(ierr); ierr = ISRestoreIndices(iscols,&cols);CHKERRQ(ierr); ierr = ISDestroy(&isrows);CHKERRQ(ierr); ierr = ISDestroy(&iscols);CHKERRQ(ierr); ierr = PetscFree(v);CHKERRQ(ierr); if (mats_view) { ierr = PetscPrintf(PETSC_COMM_WORLD, "B: nrows %d, m %d; ncols %d, p %d\n",nrows,m,ncols,p);CHKERRQ(ierr); ierr = MatView(B,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); } /* Create rhs vector b and solution x (same size as b) */ ierr = VecCreate(PETSC_COMM_WORLD,&b);CHKERRQ(ierr); ierr = VecSetSizes(b,m,PETSC_DECIDE);CHKERRQ(ierr); ierr = VecSetFromOptions(b);CHKERRQ(ierr); ierr = VecGetArray(b,&barray);CHKERRQ(ierr); for (j=0; j<m; j++) { ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); barray[j] = rval; } ierr = VecRestoreArray(b,&barray);CHKERRQ(ierr); ierr = VecAssemblyBegin(b);CHKERRQ(ierr); ierr = VecAssemblyEnd(b);CHKERRQ(ierr); if (mats_view) { ierr = PetscSynchronizedPrintf(PETSC_COMM_WORLD, "[%d] b: m %d\n",rank,m);CHKERRQ(ierr); ierr = PetscSynchronizedFlush(PETSC_COMM_WORLD,PETSC_STDOUT);CHKERRQ(ierr); ierr = VecView(b,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); } ierr = VecDuplicate(b,&x);CHKERRQ(ierr); /* Create matrix X - same size as B */ ierr = PetscPrintf(PETSC_COMM_WORLD," Create solution matrix X\n");CHKERRQ(ierr); ierr = MatCreate(PETSC_COMM_WORLD,&X);CHKERRQ(ierr); ierr = MatSetSizes(X,m,p,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); ierr = MatSetType(X,MATELEMENTAL);CHKERRQ(ierr); ierr = MatSetFromOptions(X);CHKERRQ(ierr); ierr = MatSetUp(X);CHKERRQ(ierr); ierr = MatAssemblyBegin(X,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(X,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); /* Cholesky factorization */ /*------------------------*/ ierr = PetscPrintf(PETSC_COMM_WORLD," Create Elemental matrix Aher\n");CHKERRQ(ierr); ierr = MatHermitianTranspose(A,MAT_INITIAL_MATRIX,&Aher);CHKERRQ(ierr); ierr = MatAXPY(Aher,1.0,A,SAME_NONZERO_PATTERN);CHKERRQ(ierr); /* Aher = A + A^T */ if (!rank) { /* add 100.0 to diagonals of Aher to make it spd */ PetscInt M,N; ierr = MatGetSize(Aher,&M,&N);CHKERRQ(ierr); for (i=0; i<M; i++) { rval = 100.0; ierr = MatSetValues(Aher,1,&i,1,&i,&rval,ADD_VALUES);CHKERRQ(ierr); } } ierr = MatAssemblyBegin(Aher,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(Aher,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); if (mats_view) { ierr = PetscPrintf(PETSC_COMM_WORLD, "Aher:\n");CHKERRQ(ierr); ierr = MatView(Aher,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); } /* Cholesky factorization */ /*------------------------*/ ierr = PetscPrintf(PETSC_COMM_WORLD," Test Cholesky Solver \n");CHKERRQ(ierr); /* In-place Cholesky */ /* Create matrix factor G, then copy Aher to G */ ierr = MatCreate(PETSC_COMM_WORLD,&G);CHKERRQ(ierr); ierr = MatSetSizes(G,m,n,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); ierr = MatSetType(G,MATELEMENTAL);CHKERRQ(ierr); ierr = MatSetFromOptions(G);CHKERRQ(ierr); ierr = MatSetUp(G);CHKERRQ(ierr); ierr = MatAssemblyBegin(G,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(G,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatCopy(Aher,G,SAME_NONZERO_PATTERN);CHKERRQ(ierr); /* Only G = U^T * U is implemented for now */ ierr = MatCholeskyFactor(G,0,0);CHKERRQ(ierr); if (mats_view) { ierr = PetscPrintf(PETSC_COMM_WORLD, "Cholesky Factor G:\n");CHKERRQ(ierr); ierr = MatView(G,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); } /* Solve U^T * U x = b and U^T * U X = B */ ierr = MatSolve(G,b,x);CHKERRQ(ierr); ierr = MatMatSolve(G,B,X);CHKERRQ(ierr); ierr = MatDestroy(&G);CHKERRQ(ierr); /* Out-place Cholesky */ ierr = MatGetFactor(Aher,MATSOLVERELEMENTAL,MAT_FACTOR_CHOLESKY,&G);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(G,Aher,0,&finfo);CHKERRQ(ierr); ierr = MatCholeskyFactorNumeric(G,Aher,&finfo);CHKERRQ(ierr); if (mats_view) { ierr = MatView(G,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); } ierr = MatSolve(G,b,x);CHKERRQ(ierr); ierr = MatMatSolve(G,B,X);CHKERRQ(ierr); ierr = MatDestroy(&G);CHKERRQ(ierr); /* Check norm(Aher*x - b) */ ierr = VecCreate(PETSC_COMM_WORLD,&c);CHKERRQ(ierr); ierr = VecSetSizes(c,m,PETSC_DECIDE);CHKERRQ(ierr); ierr = VecSetFromOptions(c);CHKERRQ(ierr); ierr = MatMult(Aher,x,c);CHKERRQ(ierr); ierr = VecAXPY(c,-1.0,b);CHKERRQ(ierr); ierr = VecNorm(c,NORM_1,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: |Aher*x - b| for Cholesky %g\n",(double)norm);CHKERRQ(ierr); } /* Check norm(Aher*X - B) */ ierr = MatMatMult(Aher,X,MAT_INITIAL_MATRIX,PETSC_DEFAULT,&C);CHKERRQ(ierr); ierr = MatAXPY(C,-1.0,B,SAME_NONZERO_PATTERN);CHKERRQ(ierr); ierr = MatNorm(C,NORM_1,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: |Aher*X - B| for Cholesky %g\n",(double)norm);CHKERRQ(ierr); } /* LU factorization */ /*------------------*/ ierr = PetscPrintf(PETSC_COMM_WORLD," Test LU Solver \n");CHKERRQ(ierr); /* In-place LU */ /* Create matrix factor F, then copy A to F */ ierr = MatCreate(PETSC_COMM_WORLD,&F);CHKERRQ(ierr); ierr = MatSetSizes(F,m,n,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); ierr = MatSetType(F,MATELEMENTAL);CHKERRQ(ierr); ierr = MatSetFromOptions(F);CHKERRQ(ierr); ierr = MatSetUp(F);CHKERRQ(ierr); ierr = MatAssemblyBegin(F,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(F,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatCopy(A,F,SAME_NONZERO_PATTERN);CHKERRQ(ierr); /* Create vector d to test MatSolveAdd() */ ierr = VecDuplicate(x,&d);CHKERRQ(ierr); ierr = VecCopy(x,d);CHKERRQ(ierr); /* PF=LU or F=LU factorization - perms is ignored by Elemental; set finfo.dtcol !0 or 0 to enable/disable partial pivoting */ finfo.dtcol = 0.1; ierr = MatLUFactor(F,0,0,&finfo);CHKERRQ(ierr); /* Solve LUX = PB or LUX = B */ ierr = MatSolveAdd(F,b,d,x);CHKERRQ(ierr); ierr = MatMatSolve(F,B,X);CHKERRQ(ierr); ierr = MatDestroy(&F);CHKERRQ(ierr); /* Check norm(A*X - B) */ ierr = VecCreate(PETSC_COMM_WORLD,&e);CHKERRQ(ierr); ierr = VecSetSizes(e,m,PETSC_DECIDE);CHKERRQ(ierr); ierr = VecSetFromOptions(e);CHKERRQ(ierr); ierr = MatMult(A,x,c);CHKERRQ(ierr); ierr = MatMult(A,d,e);CHKERRQ(ierr); ierr = VecAXPY(c,-1.0,e);CHKERRQ(ierr); ierr = VecAXPY(c,-1.0,b);CHKERRQ(ierr); ierr = VecNorm(c,NORM_1,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: |A*x - b| for LU %g\n",(double)norm);CHKERRQ(ierr); } ierr = MatMatMult(A,X,MAT_REUSE_MATRIX,PETSC_DEFAULT,&C);CHKERRQ(ierr); ierr = MatAXPY(C,-1.0,B,SAME_NONZERO_PATTERN);CHKERRQ(ierr); ierr = MatNorm(C,NORM_1,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: |A*X - B| for LU %g\n",(double)norm);CHKERRQ(ierr); } /* Out-place LU */ ierr = MatGetFactor(A,MATSOLVERELEMENTAL,MAT_FACTOR_LU,&F);CHKERRQ(ierr); ierr = MatLUFactorSymbolic(F,A,0,0,&finfo);CHKERRQ(ierr); ierr = MatLUFactorNumeric(F,A,&finfo);CHKERRQ(ierr); if (mats_view) { ierr = MatView(F,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); } ierr = MatSolve(F,b,x);CHKERRQ(ierr); ierr = MatMatSolve(F,B,X);CHKERRQ(ierr); ierr = MatDestroy(&F);CHKERRQ(ierr); /* Free space */ ierr = MatDestroy(&A);CHKERRQ(ierr); ierr = MatDestroy(&Aher);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = MatDestroy(&C);CHKERRQ(ierr); ierr = MatDestroy(&X);CHKERRQ(ierr); ierr = VecDestroy(&b);CHKERRQ(ierr); ierr = VecDestroy(&c);CHKERRQ(ierr); ierr = VecDestroy(&d);CHKERRQ(ierr); ierr = VecDestroy(&e);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = PetscRandomDestroy(&rand);CHKERRQ(ierr); ierr = PetscFinalize(); return 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); }
For MATSEQDENSE matrix, the factorization is just a thin wrapper to LAPACK \n\n"; #include <petscmat.h> #undef __FUNCT__ #define __FUNCT__ "main" int main(int argc,char **argv) { Mat mat,F,RHS,SOLU; MatInfo info; PetscErrorCode ierr; PetscInt m = 10,n = 10,i,j,rstart,rend,nrhs=2; PetscScalar value = 1.0; Vec x,y,b,ytmp; PetscReal norm,tol=1.e-15; PetscMPIInt size; PetscScalar *rhs_array,*solu_array; PetscRandom rand; PetscScalar *array,rval; PetscInitialize(&argc,&argv,(char*) 0,help); ierr = MPI_Comm_size(PETSC_COMM_WORLD,&size);CHKERRQ(ierr); if (size != 1) SETERRQ(PETSC_COMM_WORLD,PETSC_ERR_SUP,"This is a uniprocessor example only!"); /* create single vectors */ ierr = VecCreate(PETSC_COMM_WORLD,&y);CHKERRQ(ierr); ierr = VecSetSizes(y,PETSC_DECIDE,m);CHKERRQ(ierr); ierr = VecSetFromOptions(y);CHKERRQ(ierr); ierr = VecDuplicate(y,&x);CHKERRQ(ierr); ierr = VecDuplicate(y,&ytmp);CHKERRQ(ierr); ierr = VecSet(x,value);CHKERRQ(ierr); ierr = VecCreate(PETSC_COMM_WORLD,&b);CHKERRQ(ierr); ierr = VecSetSizes(b,PETSC_DECIDE,n);CHKERRQ(ierr); ierr = VecSetFromOptions(b);CHKERRQ(ierr); /* create multiple vectors RHS and SOLU */ ierr = MatCreate(PETSC_COMM_WORLD,&RHS);CHKERRQ(ierr); ierr = MatSetSizes(RHS,PETSC_DECIDE,PETSC_DECIDE,n,nrhs);CHKERRQ(ierr); ierr = MatSetType(RHS,MATDENSE);CHKERRQ(ierr); ierr = MatSetFromOptions(RHS);CHKERRQ(ierr); ierr = MatSeqDenseSetPreallocation(RHS,NULL);CHKERRQ(ierr); ierr = PetscRandomCreate(PETSC_COMM_WORLD,&rand);CHKERRQ(ierr); ierr = PetscRandomSetFromOptions(rand);CHKERRQ(ierr); ierr = MatDenseGetArray(RHS,&array);CHKERRQ(ierr); for (j=0; j<nrhs; j++) { for (i=0; i<n; i++) { ierr = PetscRandomGetValue(rand,&rval);CHKERRQ(ierr); array[n*j+i] = rval; } } ierr = MatDenseRestoreArray(RHS,&array);CHKERRQ(ierr); ierr = MatDuplicate(RHS,MAT_DO_NOT_COPY_VALUES,&SOLU);CHKERRQ(ierr); /* create matrix */ ierr = MatCreateSeqDense(PETSC_COMM_WORLD,m,n,NULL,&mat);CHKERRQ(ierr); ierr = MatGetOwnershipRange(mat,&rstart,&rend);CHKERRQ(ierr); for (i=rstart; i<rend; i++) { value = (PetscReal)i+1; ierr = MatSetValues(mat,1,&i,1,&i,&value,INSERT_VALUES);CHKERRQ(ierr); } ierr = MatAssemblyBegin(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); ierr = PetscPrintf(PETSC_COMM_WORLD,"matrix nonzeros = %D, allocated nonzeros = %D\n", (PetscInt)info.nz_used,(PetscInt)info.nz_allocated);CHKERRQ(ierr); /* Cholesky factorization - perm and factinfo are ignored by LAPACK */ /* in-place Cholesky */ ierr = MatMult(mat,x,b);CHKERRQ(ierr); ierr = MatDuplicate(mat,MAT_COPY_VALUES,&F);CHKERRQ(ierr); ierr = MatCholeskyFactor(F,0,0);CHKERRQ(ierr); ierr = MatSolve(F,b,y);CHKERRQ(ierr); ierr = MatDestroy(&F);CHKERRQ(ierr); value = -1.0; ierr = VecAXPY(y,value,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: Norm of error for Cholesky %G\n",norm);CHKERRQ(ierr); } /* out-place Cholesky */ ierr = MatGetFactor(mat,MATSOLVERPETSC,MAT_FACTOR_CHOLESKY,&F);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(F,mat,0,0);CHKERRQ(ierr); ierr = MatCholeskyFactorNumeric(F,mat,0);CHKERRQ(ierr); ierr = MatSolve(F,b,y);CHKERRQ(ierr); value = -1.0; ierr = VecAXPY(y,value,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: Norm of error for Cholesky %G\n",norm);CHKERRQ(ierr); } ierr = MatDestroy(&F);CHKERRQ(ierr); /* LU factorization - perms and factinfo are ignored by LAPACK */ i = m-1; value = 1.0; ierr = MatSetValues(mat,1,&i,1,&i,&value,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatMult(mat,x,b);CHKERRQ(ierr); ierr = MatDuplicate(mat,MAT_COPY_VALUES,&F);CHKERRQ(ierr); /* in-place LU */ ierr = MatLUFactor(F,0,0,0);CHKERRQ(ierr); ierr = MatSolve(F,b,y);CHKERRQ(ierr); value = -1.0; ierr = VecAXPY(y,value,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: Norm of error for LU %G\n",norm);CHKERRQ(ierr); } ierr = MatMatSolve(F,RHS,SOLU);CHKERRQ(ierr); ierr = MatDenseGetArray(SOLU,&solu_array);CHKERRQ(ierr); ierr = MatDenseGetArray(RHS,&rhs_array);CHKERRQ(ierr); for (j=0; j<nrhs; j++) { ierr = VecPlaceArray(y,solu_array+j*m);CHKERRQ(ierr); ierr = VecPlaceArray(b,rhs_array+j*m);CHKERRQ(ierr); ierr = MatMult(mat,y,ytmp);CHKERRQ(ierr); ierr = VecAXPY(ytmp,-1.0,b);CHKERRQ(ierr); /* ytmp = mat*SOLU[:,j] - RHS[:,j] */ ierr = VecNorm(ytmp,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Error: Norm of residual for LU %G\n",norm);CHKERRQ(ierr); } ierr = VecResetArray(b);CHKERRQ(ierr); ierr = VecResetArray(y);CHKERRQ(ierr); } ierr = MatDenseRestoreArray(RHS,&rhs_array);CHKERRQ(ierr); ierr = MatDenseRestoreArray(SOLU,&solu_array);CHKERRQ(ierr); ierr = MatDestroy(&F);CHKERRQ(ierr); /* out-place LU */ ierr = MatGetFactor(mat,MATSOLVERPETSC,MAT_FACTOR_LU,&F);CHKERRQ(ierr); ierr = MatLUFactorSymbolic(F,mat,0,0,0);CHKERRQ(ierr); ierr = MatLUFactorNumeric(F,mat,0);CHKERRQ(ierr); ierr = MatSolve(F,b,y);CHKERRQ(ierr); value = -1.0; ierr = VecAXPY(y,value,x);CHKERRQ(ierr); ierr = VecNorm(y,NORM_2,&norm);CHKERRQ(ierr); if (norm > tol) { ierr = PetscPrintf(PETSC_COMM_WORLD,"Warning: Norm of error for LU %G\n",norm);CHKERRQ(ierr); } /* free space */ ierr = MatDestroy(&F);CHKERRQ(ierr); ierr = MatDestroy(&mat);CHKERRQ(ierr); ierr = MatDestroy(&RHS);CHKERRQ(ierr); ierr = MatDestroy(&SOLU);CHKERRQ(ierr); ierr = PetscRandomDestroy(&rand);CHKERRQ(ierr); ierr = VecDestroy(&x);CHKERRQ(ierr); ierr = VecDestroy(&b);CHKERRQ(ierr); ierr = VecDestroy(&y);CHKERRQ(ierr); ierr = VecDestroy(&ytmp);CHKERRQ(ierr); ierr = PetscFinalize(); return 0; }
int main(int argc,char **args) { PetscErrorCode ierr; Mat mat,fact,B; PetscInt ind1[2],ind2[2]; PetscScalar temp[4]; PetscInt nnz[3]; IS perm,colp; MatFactorInfo info; PetscMPIInt size; ierr = PetscInitialize(&argc,&args,0,help);if (ierr) return ierr; ierr = MPI_Comm_size(PETSC_COMM_WORLD,&size);CHKERRQ(ierr); if (size != 1) SETERRQ(PETSC_COMM_WORLD,PETSC_ERR_SUP,"This is a uniprocessor example only!"); nnz[0]=2;nnz[1]=1;nnz[2]=1; ierr = MatCreateSeqSBAIJ(PETSC_COMM_SELF,2,6,6,0,nnz,&mat);CHKERRQ(ierr); ind1[0]=0;ind1[1]=1; temp[0]=3;temp[1]=2;temp[2]=0;temp[3]=3; ierr = MatSetValues(mat,2,ind1,2,ind1,temp,INSERT_VALUES);CHKERRQ(ierr); ind2[0]=4;ind2[1]=5; temp[0]=1;temp[1]=1;temp[2]=2;temp[3]=1; ierr = MatSetValues(mat,2,ind1,2,ind2,temp,INSERT_VALUES);CHKERRQ(ierr); ind1[0]=2;ind1[1]=3; temp[0]=4;temp[1]=1;temp[2]=1;temp[3]=5; ierr = MatSetValues(mat,2,ind1,2,ind1,temp,INSERT_VALUES);CHKERRQ(ierr); ind1[0]=4;ind1[1]=5; temp[0]=5;temp[1]=1;temp[2]=1;temp[3]=6; ierr = MatSetValues(mat,2,ind1,2,ind1,temp,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatDuplicate(mat,MAT_SHARE_NONZERO_PATTERN,&B);CHKERRQ(ierr); ind1[0]=0;ind1[1]=1; temp[0]=3;temp[1]=2;temp[2]=0;temp[3]=3; ierr = MatSetValues(mat,2,ind1,2,ind1,temp,INSERT_VALUES);CHKERRQ(ierr); ind2[0]=4;ind2[1]=5; temp[0]=1;temp[1]=1;temp[2]=2;temp[3]=1; ierr = MatSetValues(mat,2,ind1,2,ind2,temp,INSERT_VALUES);CHKERRQ(ierr); ind1[0]=2;ind1[1]=3; temp[0]=4;temp[1]=1;temp[2]=1;temp[3]=5; ierr = MatSetValues(mat,2,ind1,2,ind1,temp,INSERT_VALUES);CHKERRQ(ierr); ind1[0]=4;ind1[1]=5; temp[0]=5;temp[1]=1;temp[2]=1;temp[3]=6; ierr = MatSetValues(mat,2,ind1,2,ind1,temp,INSERT_VALUES);CHKERRQ(ierr); ierr = MatAssemblyBegin(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = MatAssemblyEnd(mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); ierr = PetscPrintf(PETSC_COMM_WORLD,"mat: \n");CHKERRQ(ierr); ierr = MatView(mat,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr); /* begin cholesky factorization */ ierr = MatGetOrdering(mat,MATORDERINGNATURAL,&perm,&colp);CHKERRQ(ierr); ierr = ISDestroy(&colp);CHKERRQ(ierr); info.fill=1.0; ierr = MatGetFactor(mat,MATSOLVERPETSC,MAT_FACTOR_CHOLESKY,&fact);CHKERRQ(ierr); ierr = MatCholeskyFactorSymbolic(fact,mat,perm,&info);CHKERRQ(ierr); ierr = MatCholeskyFactorNumeric(fact,mat,&info);CHKERRQ(ierr); ierr = ISDestroy(&perm);CHKERRQ(ierr); ierr = MatDestroy(&mat);CHKERRQ(ierr); ierr = MatDestroy(&fact);CHKERRQ(ierr); ierr = MatDestroy(&B);CHKERRQ(ierr); ierr = PetscFinalize(); return ierr; }