[petsc-users] Caught signal number 10 BUS: Bus Error

[Matthew Knepley]

On Tue, Apr 14, 2015 at 9:20 PM, Justin Chang <jchang27 at uh.edu> wrote:

> Hello everyone,
>
> My program runs fine, with debug mode, on my Ubuntu laptop, but when I run
> the same code on my iMac (Yosemite) with no debug, I get this error:
>

So it appears that this SEGV happens in your code, which likely means your
pointwise function. You can confirm by
getting a stack trace from gdb or lldb.

 Thanks,

    Matt


> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: Caught signal number 10 BUS: Bus Error, possibly illegal
> memory access
> [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
> [0]PETSC ERROR: or see
> http://www.mcs.anl.gov/petsc/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: configure using --with-debugging=yes, recompile, link, and
> run
> [0]PETSC ERROR: to get more information on the crash.
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR: Signal received
> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> [0]PETSC ERROR: Petsc Development GIT revision: v3.5.3-2687-g3beb275  GIT
> Date: 2015-04-14 12:56:30 -0500
> [0]PETSC ERROR: ./main on a arch-darwin-c-debug named CAML-03.CIVE.UH.EDU
> by jychang48 Tue Apr 14 21:09:31 2015
> [0]PETSC ERROR: Configure options --download-chaco --download-ctetgen
> --download-exodusii --download-fblaslapack --download-hdf5 --download-metis
> --download-mumps --download-netcdf --download-openmpi --download-parmetis
> --download-scalapack --download-triangle --with-cc=gcc --with-cmake=cmake
> --with-cxx=g++ --with-debugging=0 --with-fc=gfortran --with-valgrind=1
> CFLAGS= CXXFLAGS= PETSC_ARCH=arch-darwin-c-debug
> [0]PETSC ERROR: #1 User provided function() line 0 in  unknown file
> --------------------------------------------------------------------------
> MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_WORLD
> with errorcode 59.
>
> NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes.
> You may or may not see output from other processes, depending on
> exactly when Open MPI kills them.
> --------------------------------------------------------------------------
> -------------------------------------------------------
> Primary job  terminated normally, but 1 process returned
> a non-zero exit code.. Per user-direction, the job has been aborted.
> -------------------------------------------------------
> --------------------------------------------------------------------------
> mpiexec detected that one or more processes exited with non-zero status,
> thus causing
> the job to be terminated. The first process to do so was:
>
>   Process name: [[11164,1],0]
>   Exit code:    59
> --------------------------------------------------------------------------
>
> Can someone explain what this error means to me? Basically, I have an FEM
> code (using DMPlex), with auxiliary field coefficients, and this error
> occurs when I compute the Jacobian via SNESComputeJacobian(...). This error
> doesn't happen on my Ubuntu laptop.
>
> Thanks,
>
> --
> Justin Chang
> PhD Candidate, Civil Engineering - Computational Sciences
> University of Houston, Department of Civil and Environmental Engineering
> Houston, TX 77004
> (512) 963-3262
>



-- 
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
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