[petsc-users] Problem with "likely location of problem given in stack below"?
Alan Wei
zhenglun.wei at gmail.com
Sat Apr 7 15:41:31 CDT 2012
Dear All,
I hope you're having a nice weekend.
I got a problem with /ksp/ksp/example/tutorial. I was trying to execute
this example with petsc-dev in a share memory dell workstation with 8
cores. The parameter for DMDACreate2d is 500, 500, which means it generates
a 1997*1997 2d grid. It is fine to run it with single process with either
"./ex29" or "mpiexec -np 1 ./exe29". However, it came across a error when I
tempted to run it with more than 1 process. The error message is like this,
when I was trying to execute it with 4 processes. I was thinking about if
the 'stack size' is the problem, so I enlarge it to 1000000000 with
'ulimit' command. However, the same error message keeps showing up.
[1]PETSC ERROR:
------------------------------------------------------------------------
[1]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,
probably memory access out of range
[1]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[1]PETSC ERROR: or see
http://www.mcs.anl.gov/petsc/petsc-as/documentation/faq.html#valgrind[1]PETSCERROR:
or try
http://valgrind.org on GNU/linux and Apple Mac OS X to find memory
corruption errors
[2]PETSC ERROR:
------------------------------------------------------------------------
[2]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,
probably memory access out of range
[2]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[2]PETSC ERROR: or see
http://www.mcs.anl.gov/petsc/petsc-as/documentation/faq.html#valgrind[2]PETSCERROR:
or try
http://valgrind.org on GNU/linux and Apple Mac OS X to find memory
corruption errors
[1]PETSC ERROR: likely location of problem given in stack below
[1]PETSC ERROR: --------------------- Stack Frames
------------------------------------
[2]PETSC ERROR: likely location of problem given in stack below
[2]PETSC ERROR: --------------------- Stack Frames
------------------------------------
[1]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
[1]PETSC ERROR: INSTEAD the line number of the start of the function
[1]PETSC ERROR: is given.
[1]PETSC ERROR: [1] VecView_VTK line 231
src/ksp/ksp/examples/tutorials/ex29.c
[1]PETSC ERROR: --------------------- Error Message
------------------------------------
[1]PETSC ERROR: Signal received!
[1]PETSC ERROR:
------------------------------------------------------------------------
[1]PETSC ERROR: Petsc Development HG revision:
85e6055943e0711fccdec2d08caeba48971d3d55 HG Date: Fri Sep 23 14:46:14 2011
-0700
[1]PETSC ERROR: See docs/changes/index.html for recent updates.
[1]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
[1]PETSC ERROR: See docs/index.html for manual pages.
[1]PETSC ERROR:
------------------------------------------------------------------------
[1]PETSC ERROR: ./ex29 on a arch-linu named l2118a-linux.soecs.ku.edu by
zlwei Sat Apr 7 16:33:21 2012
[1]PETSC ERROR: Libraries linked from
/home/zlwei/soft/mercurial/petsc-dev/arch-linux2-c-debug/lib
[1]PETSC ERROR: Configure run at Fri Sep 23 17:13:32 2011
[1]PETSC ERROR: Configure options --download-f-blas-lapack=1
--download-mpich=1 --with-cc=gcc --with-fc=gfortran
PETSC_ARCH=arch-linux2-c-debug
[1]PETSC ERROR:
------------------------------------------------------------------------
[1]PETSC ERROR: User provided function() line 0 in unknown directory
unknown file
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 1
[cli_1]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 1
[2]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
[2]PETSC ERROR: INSTEAD the line number of the start of the function
[2]PETSC ERROR: is given.
[2]PETSC ERROR: [2] VecView_VTK line 231
src/ksp/ksp/examples/tutorials/ex29.c
[2]PETSC ERROR: --------------------- Error Message
------------------------------------
[2]PETSC ERROR: Signal received!
[2]PETSC ERROR:
------------------------------------------------------------------------
[2]PETSC ERROR: Petsc Development HG revision:
85e6055943e0711fccdec2d08caeba48971d3d55 HG Date: Fri Sep 23 14:46:14 2011
-0700
[2]PETSC ERROR: See docs/changes/index.html for recent updates.
[2]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
[2]PETSC ERROR: See docs/index.html for manual pages.
[2]PETSC ERROR:
------------------------------------------------------------------------
[2]PETSC ERROR: ./ex29 on a arch-linu named l2118a-linux.soecs.ku.edu by
zlwei Sat Apr 7 16:33:21 2012
[2]PETSC ERROR: Libraries linked from
/home/zlwei/soft/mercurial/petsc-dev/arch-linux2-c-debug/lib
[2]PETSC ERROR: Configure run at Fri Sep 23 17:13:32 2011
[2]PETSC ERROR: Configure options --download-f-blas-lapack=1
--download-mpich=1 --with-cc=gcc --with-fc=gfortran
PETSC_ARCH=arch-linux2-c-debug
[2]PETSC ERROR:
------------------------------------------------------------------------
[2]PETSC ERROR: User provided function() line 0 in unknown directory
unknown file
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 2
[cli_2]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 2
[3]PETSC ERROR:
------------------------------------------------------------------------
[3]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,
probably memory access out of range
[3]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[3]PETSC ERROR: or see
http://www.mcs.anl.gov/petsc/petsc-as/documentation/faq.html#valgrind[3]PETSCERROR:
or try
http://valgrind.org on GNU/linux and Apple Mac OS X to find memory
corruption errors
[3]PETSC ERROR: likely location of problem given in stack below
[3]PETSC ERROR: --------------------- Stack Frames
------------------------------------
[3]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
[3]PETSC ERROR: INSTEAD the line number of the start of the function
[3]PETSC ERROR: is given.
[3]PETSC ERROR: [3] VecView_VTK line 231
src/ksp/ksp/examples/tutorials/ex29.c
[3]PETSC ERROR: --------------------- Error Message
------------------------------------
[3]PETSC ERROR: Signal received!
[3]PETSC ERROR:
------------------------------------------------------------------------
[3]PETSC ERROR: Petsc Development HG revision:
85e6055943e0711fccdec2d08caeba48971d3d55 HG Date: Fri Sep 23 14:46:14 2011
-0700
[3]PETSC ERROR: See docs/changes/index.html for recent updates.
[3]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
[3]PETSC ERROR: See docs/index.html for manual pages.
[3]PETSC ERROR:
------------------------------------------------------------------------
[3]PETSC ERROR: ./ex29 on a arch-linu named l2118a-linux.soecs.ku.edu by
zlwei Sat Apr 7 16:33:21 2012
[3]PETSC ERROR: Libraries linked from
/home/zlwei/soft/mercurial/petsc-dev/arch-linux2-c-debug/lib
[3]PETSC ERROR: Configure run at Fri Sep 23 17:13:32 2011
[3]PETSC ERROR: Configure options --download-f-blas-lapack=1
--download-mpich=1 --with-cc=gcc --with-fc=gfortran
PETSC_ARCH=arch-linux2-c-debug
[3]PETSC ERROR:
------------------------------------------------------------------------
[3]PETSC ERROR: User provided function() line 0 in unknown directory
unknown file
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 3
[cli_3]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 3
[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]PETSCERROR:
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] VecView_VTK line 231
src/ksp/ksp/examples/tutorials/ex29.c
[0]PETSC ERROR: --------------------- Error Message
------------------------------------
[0]PETSC ERROR: Signal received!
[0]PETSC ERROR:
------------------------------------------------------------------------
[0]PETSC ERROR: Petsc Development HG revision:
85e6055943e0711fccdec2d08caeba48971d3d55 HG Date: Fri Sep 23 14:46:14 2011
-0700
[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: ./ex29 on a arch-linu named l2118a-linux.soecs.ku.edu by
zlwei Sat Apr 7 16:33:21 2012
[0]PETSC ERROR: Libraries linked from
/home/zlwei/soft/mercurial/petsc-dev/arch-linux2-c-debug/lib
[0]PETSC ERROR: Configure run at Fri Sep 23 17:13:32 2011
[0]PETSC ERROR: Configure options --download-f-blas-lapack=1
--download-mpich=1 --with-cc=gcc --with-fc=gfortran
PETSC_ARCH=arch-linux2-c-debug
[0]PETSC ERROR:
------------------------------------------------------------------------
[0]PETSC ERROR: User provided function() line 0 in unknown directory
unknown file
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
[cli_0]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
thanks in advance,
Alan
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