[petsc-users] parallel PCASM
Matthew Knepley
knepley at gmail.com
Wed Dec 21 14:19:27 CST 2011
On Wed, Dec 21, 2011 at 2:12 PM, Reza Madankan <rm93 at buffalo.edu> wrote:
> Hello,
> I am trying to parallelize the ASM preconditioner while solving a linear
> system. For more detail, I have printed relevant parts of code in the
> following:
>
I have no idea what "parallelize ASM" might mean.
Below you likely have a bad value in b, the rhs you pass to the solver on
line 487 of your code.
Matt
> *static char help[]="Reading in a matrix\n";*
> *
> *
> * #include<stdio.h>*
> *
> *
> * #include<math.h>*
> *
> *
> * #include<stdlib.h>*
> *
> *
> * #include "petscvec.h" /* This enables us to use vectors. */*
> *
> *
> * #include "petscmat.h" /* This enables us to use Matrices. It includes
> the*
> * petscvec header file*/*
> *
> *
> * #include "petscksp.h" /* Now we can solve linear systems. Solvers used
> are*
> * KSP. */*
> *
> *
> * extern PetscErrorCode MyKSPMonitor(KSP,PetscInt,PetscReal,void*);*
> *
> *
> * int main(int argc, char **argv)*
> *
> *
> * {*
> *
> *
> * /* Declaration of Matrix A and some vectors x*/*
> *
> *
> * Vec w, ypcq, mean_tmp, x, PzyTvec;*
> * Mat Ym, Y, Mean, Ypcq, YpcqT, Pzz, InnProd, Para, Pzy, PzyT,PzzT,K, KT,
> PK, PzzTMP, Pmat, XYmat, KY;*
> *
> *
> * FILE *fp, *fp1, *fp2, *fp3;*
> *
> *
> * PetscInt index,i,j,k, ns=16, nw=100, tindex_f=120, col,tind, mz, nz,
> its;*
> */* *
> *printf("Enter number of sensors (ns):\n");*
> *scanf("%d",&ns);*
> *
> *
> *printf("Enter number of time steps (tindex_f):\n");*
> *scanf("%d",&tindex_f);*
> **/*
> * PetscMPIInt size;*
> *
> *
> * PC pc;*
> * KSP ksp;*
> * PetscReal norm, tol=1.e-14;*
> * PetscBool nonzeroguess = PETSC_FALSE;*
> * PetscViewer mviewer;*
> *
> *
> *
> *
> * PetscScalar scalar,rhsy[ns*tindex_f*nw],rhsym[ns*tindex_f], rhsw[nw],
> Ymat[tindex_f*ns][nw], tmp, rhsp[2*nw], xvec[ns*tindex_f], pmat[4],
> xymat[2], rnorm;*
> *
> *
> * PetscErrorCode ierr;*
> *
> *
> * /* This part is needed for the help flag supplied at run-time*/*
> *
> *
> * ierr = PetscInitialize(&argc,&argv,(char*)0,help);CHKERRQ(ierr);*
> * *
> * ierr = MPI_Comm_size(PETSC_COMM_WORLD, &size);CHKERRQ(ierr);*
> * //if (size != 1) SETERRQ(PETSC_COMM_WORLD,1,"This is a uniprocessor
> example");*
> *PetscPrintf(PETSC_COMM_WORLD,"size is: %D\n",size);*
> *int nstindex_f=ns*tindex_f;*
> *ierr =
> PetscOptionsGetInt(PETSC_NULL,"-n",&nstindex_f,PETSC_NULL);CHKERRQ(ierr);*
> *
> *
> *.*
> *.*
> *.*
> *
> *
> *
> *
> *// Solution for K:*
> *// --------------*
> *
> *
> * ierr = MPI_Comm_size(PETSC_COMM_WORLD, &size);CHKERRQ(ierr);*
> * ierr =
> PetscOptionsGetInt(PETSC_NULL,"-n",&nstindex_f,PETSC_NULL);CHKERRQ(ierr);*
> * ierr =
> PetscOptionsGetBool(PETSC_NULL,"-nonzero_guess",&nonzeroguess,PETSC_NULL);
> CHKERRQ(ierr);*
> *
> *
> *
> *
> *// KSPMonitorSet(ksp,MyKSPMonitor,PETSC_NULL,0);*
> *
> *
> *
> *
> * ierr = VecCreate(PETSC_COMM_WORLD,&x);CHKERRQ(ierr);*
> * ierr = PetscObjectSetName((PetscObject) x, "Solution");CHKERRQ(ierr);
> *
> * ierr = VecSetSizes(x,PETSC_DECIDE,ns*tindex_f);CHKERRQ(ierr);*
> * ierr = VecSetFromOptions(x);CHKERRQ(ierr);*
> * ierr = KSPCreate(PETSC_COMM_WORLD,&ksp);CHKERRQ(ierr);*
> * *
> *
> *
> *// ierr = KSPMonitorSet(ksp,PetscInt n,PetscReal rnorm, void *); *
> *// ierr = monitor(ksp,Int it,PetscReal rnorm,);*
> * *
> *
> *
> * ierr = MatTranspose(Pzz,MAT_INITIAL_MATRIX,&PzzT);*
> * MatAssemblyBegin(PzzT,MAT_FINAL_ASSEMBLY);*
> * MatAssemblyEnd(PzzT,MAT_FINAL_ASSEMBLY);*
> * ierr =
> KSPSetOperators(ksp,PzzT,PzzT,DIFFERENT_NONZERO_PATTERN);CHKERRQ(ierr);*
> *
> *
> * ierr = KSPGetPC(ksp,&pc);CHKERRQ(ierr);*
> * ierr = PCSetType(pc,PCASM);CHKERRQ(ierr);*
> * ierr =
> KSPSetTolerances(ksp,1e-6,PETSC_DEFAULT,PETSC_DEFAULT,1e+9);CHKERRQ(ierr);
> *
> * ierr = KSPSetFromOptions(ksp);CHKERRQ(ierr);*
> * if (nonzeroguess)*
> * {*
> * PetscScalar p = 0.5;*
> * ierr = VecSet(x,p);CHKERRQ(ierr);*
> * ierr = KSPSetInitialGuessNonzero(ksp,PETSC_TRUE);CHKERRQ(ierr);*
> * }*
> * ierr = MatTranspose(Pzy,MAT_INITIAL_MATRIX,&PzyT);*
> * MatAssemblyBegin(PzyT,MAT_FINAL_ASSEMBLY);*
> * MatAssemblyEnd(PzyT,MAT_FINAL_ASSEMBLY);*
> * ierr = MatCreate(PETSC_COMM_WORLD,&KT);CHKERRQ(ierr);*
> * ierr =
> MatSetSizes(KT,PETSC_DECIDE,PETSC_DECIDE,ns*tindex_f,2);CHKERRQ(ierr);*
> * ierr = MatSetFromOptions(KT);CHKERRQ(ierr);*
> * int ctr=0;*
> * for (ctr=0; ctr<2; ctr++)*
> * {*
> * ierr = VecCreate(PETSC_COMM_WORLD,&PzyTvec);*
> * ierr = VecSetSizes(PzyTvec,PETSC_DECIDE,ns*tindex_f);*
> * ierr = VecSetFromOptions(PzyTvec);*
> * ierr = MatGetColumnVector(PzyT,PzyTvec,ctr);*
> *
> *
> * ierr = KSPSolve(ksp,PzyTvec,x);CHKERRQ(ierr);*
> * ierr = KSPGetIterationNumber(ksp,&its);CHKERRQ(ierr);*
> * ierr = KSPGetResidualNorm(ksp,& norm); *
> * printf("residual norm is=%e\n",norm);*
> * printf("iteration number is=%d\n",its);*
> * ierr = KSPView(ksp,PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr);*
> * *
> *// printf("%d\n", ctr);*
> * for (i=0; i<ns*tindex_f; i++)*
> * {*
> * ierr = VecGetValues(x,1,&i,&xvec[i]);*
> * ierr = MatSetValues(KT,1,&i,1,&ctr,&xvec[i],INSERT_VALUES);*
> * }*
> * }*
> * MatAssemblyBegin(KT,MAT_FINAL_ASSEMBLY);*
> * MatAssemblyEnd(KT,MAT_FINAL_ASSEMBLY);*
> * MatTranspose(KT,MAT_INITIAL_MATRIX,&K);*
> * MatAssemblyBegin(K,MAT_FINAL_ASSEMBLY);*
> * MatAssemblyEnd(K,MAT_FINAL_ASSEMBLY);*
> *
> *
> * MatPtAP(Pzz,KT,MAT_INITIAL_MATRIX,1.0,&PK);*
> *//MatCopy(Pzz,PzzTMP,SAME_NONZERO_PATTERN);*
> * ierr = MatAXPY(Pmat,-1,PK,DIFFERENT_NONZERO_PATTERN);*
> * MatView(Pmat,PETSC_VIEWER_STDOUT_WORLD);*
> *
> *
> * ierr = MatAXPY(Ym,-1,Mean,DIFFERENT_NONZERO_PATTERN);*
> * MatAssemblyBegin(Ym,MAT_FINAL_ASSEMBLY);*
> * MatAssemblyEnd(Ym,MAT_FINAL_ASSEMBLY);*
> *
> *
> * ierr = MatMatMult(K,Ym,MAT_INITIAL_MATRIX,PETSC_DEFAULT,&KY);*
> * ierr = MatAssemblyBegin(KY,MAT_FINAL_ASSEMBLY);*
> * ierr = MatAssemblyEnd(KY,MAT_FINAL_ASSEMBLY);*
> * ierr = MatAXPY(XYmat,1,KY,DIFFERENT_NONZERO_PATTERN);*
> * MatView(XYmat,PETSC_VIEWER_STDOUT_WORLD);*
> *
> *
> *ierr = MatDestroy(&Mean);*
> *
> *
> *ierr=PetscFinalize();CHKERRQ(ierr);*
> *
> *
> * return 0;*
> *
> *
> * }*
> *
> *
>
>
> I am using the following commands to compile and run the code:
>
> *mpicc pcasm.c -o pcasm -l petsc*
> *mpiexec -np 2 ./pcasm*
>
> But when I run the code I get the following error message which I don't
> know what it means.
>
>
> [0]PETSC ERROR: --------------------- Error Message
> ------------------------------------
> [0]PETSC ERROR: Floating point exception!
> [0]PETSC ERROR: Infinite or not-a-number generated in norm!
> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: Petsc Release Version 3.2.0, Patch 3, Fri Sep 30 10:28:33
> CDT 2011
> [0]PETSC ERROR: See docs/changes/index.html for recent updates.
> [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
> [0]PETSC ERROR: See docs/index.html for manual pages.
> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: ./pcasm on a linux-imp named k07n14.ccr.buffalo.edu by
> rm93 Wed Dec 21 15:05:33 2011
> [0]PETSC ERROR: Libraries linked from
> /util/petsc/petsc-3.2-p3/linux-impi-mkl/lib
> [0]PETSC ERROR: Configure run at Fri Oct 21 08:36:23 2011
> [0]PETSC ERROR: Configure options --CC=/util/intel/impi/
> 4.0.3.008/intel64/bin/mpiicc --FC=/util/intel/impi/
> 4.0.3.008/intel64/bin/mpiifort --CXX=/util/intel/impi/
> 4.0.3.008/intel64/bin/mpiicpc--with-blas-lapack-dir=/util/intel/composer_xe_2011_sp1/mkl/lib/intel64
> --download-hypre=1 --with-debugging=0 -PETSC_ARCH=linux-impi-mkl
> --with-shared-libraries=1
> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: VecNorm() line 167 in src/vec/vec/interface/rvector.c
> [0]PETSC ERROR: VecNormalize() line 261 in src/vec/vec/interface/rvector.c
> [0]PETSC ERROR: GMREScycle() line 128 in src/ksp/ksp/impls/gmres/gmres.c
> [0]PETSC ERROR: KSPSolve_GMRES() line 231 in
> src/ksp/ksp/impls/gmres/gmres.c
> [0]PETSC ERROR: KSPSolve() line 423 in src/ksp/ksp/interface/itfunc.c
> [0]PETSC ERROR: main() line 487 in "unknowndirectory/"pcasm.c
> application called MPI_Abort(MPI_COMM_WORLD, 72) - process 0
> rank 0 in job 2 k07n14.ccr.buffalo.edu_51735 caused collective abort of
> all ranks
> exit status of rank 0: return code 72
>
>
>
>
>
>
> Could anyone help me on this problem? Thanks in advance for any help.
>
>
>
>
--
What most experimenters take for granted before they begin their
experiments is infinitely more interesting than any results to which their
experiments lead.
-- Norbert Wiener
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20111221/85b9566e/attachment-0001.htm>
More information about the petsc-users
mailing list