[petsc-users] Preconditioned JFNK using SuperLU_dist for time dependent problems

[Barry Smith]

  Ok, next step is valgrind http://www.mcs.anl.gov/petsc/petsc-as/documentation/faq.html#valgrind

   valgrind is an amazing tool (and I don't say the easily) to help track down memory corruption problems that otherwise are difficult to find.  It is likely that valgrind can resolve this issue in a few minutes.

   Barry



On Jul 29, 2011, at 12:52 PM, Travis C. Fisher wrote:

> Barry,
> 
> I added the line,
> call MatSetOption(pcmat,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE,ierr),
> after the call to matrix assembly and do not get an error associated with the nonzero locations.
> 
> Here is the error running superlu_dist with one processor.
> 
> 0 SNES Function norm 9.448256037271e+02
>       Nonzeros in L       21005940
>       Nonzeros in U       21018240
>       nonzeros in L+U     41958975
>       nonzeros in LSUB    3914621
> [0]PETSC ERROR: ------------------------------------------------------------------------
> [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range
> [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
> [0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/petsc-as/documentation/faq.html#valgrind[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
> [0]PETSC ERROR: likely location of problem given in stack below
> [0]PETSC ERROR: ---------------------  Stack Frames ------------------------------------
> [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
> [0]PETSC ERROR:       INSTEAD the line number of the start of the function
> [0]PETSC ERROR:       is given.
> [0]PETSC ERROR: [0] MatSolve_SuperLU_DIST line 117 /scratch/tfisher/petsc-dev/src/mat/impls/aij/mpi/superlu_dist/superlu_dist.c
> [0]PETSC ERROR: [0] MatSolve line 3039 /scratch/tfisher/petsc-dev/src/mat/interface/matrix.c
> [0]PETSC ERROR: [0] PCApply_LU line 202 /scratch/tfisher/petsc-dev/src/ksp/pc/impls/factor/lu/lu.c
> [0]PETSC ERROR: [0] PCApply line 373 /scratch/tfisher/petsc-dev/src/ksp/pc/interface/precon.c
> [0]PETSC ERROR: [0] KSPInitialResidual line 45 /scratch/tfisher/petsc-dev/src/ksp/ksp/interface/itres.c
> [0]PETSC ERROR: [0] KSPSolve_LGMRES line 354 /scratch/tfisher/petsc-dev/src/ksp/ksp/impls/gmres/lgmres/lgmres.c
> [0]PETSC ERROR: [0] KSPSolve line 330 /scratch/tfisher/petsc-dev/src/ksp/ksp/interface/itfunc.c
> [0]PETSC ERROR: [0] SNES_KSPSolve line 3364 /scratch/tfisher/petsc-dev/src/snes/interface/snes.c
> [0]PETSC ERROR: [0] SNESSolve_LS line 142 /scratch/tfisher/petsc-dev/src/snes/impls/ls/ls.c
> [0]PETSC ERROR: [0] SNESSolve line 2617 /scratch/tfisher/petsc-dev/src/snes/interface/snes.c
> [0]PETSC ERROR: --------------------- Error Message ------------------------------------
> [0]PETSC ERROR: Signal received!
> [0]PETSC ERROR: ------------------------------------------------------------------------
> [0]PETSC ERROR: Petsc Development HG revision: 77f4001db099d653cddbbaf61d75c0cf8cf833fd  HG Date: Fri Jul 29 13:41:12 2011 +0200
> [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: ./HFCFS on a arch-linu named larss-nad by tcfishe1 Fri Jul 29 13:47:04 2011
> [0]PETSC ERROR: Libraries linked from /ump/fldmd/home/tcfishe1/gnucompiled/lib
> [0]PETSC ERROR: Configure run at Fri Jul 29 11:37:36 2011
> [0]PETSC ERROR: Configure options --prefix=/ump/fldmd/home/tcfishe1/gnucompiled --download-fblas-lapack=yes --download-superlu_dist=yes --download-parmetis=yes --download-hypre=yes --download-mumps=yes --download-blacs=yes --download-scalapack=yes
> [0]PETSC ERROR: ------------------------------------------------------------------------
> [0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
> --------------------------------------------------------------------------
> MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_WORLD
> with errorcode 59.
> 
> Thanks,
> 
> Travis
>