[petsc-users] parallel IO messages

[Fande Kong]

Hi all,

I implemented a parallel IO based on the Vec and IS which uses HDF5. I am
testing this loader on a supercomputer. I occasionally (not always)
encounter the following errors (using 8192 cores):

[7689]PETSC ERROR:
------------------------------------------------------------------------
[7689]PETSC ERROR: Caught signal number 5 TRAP
[7689]PETSC ERROR: Try option -start_in_debugger or
-on_error_attach_debugger
[7689]PETSC ERROR: or see
http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind
[7689]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS
X to find memory corruption errors
[7689]PETSC ERROR: configure using --with-debugging=yes, recompile, link,
and run
[7689]PETSC ERROR: to get more information on the crash.
[7689]PETSC ERROR: --------------------- Error Message
--------------------------------------------------------------
[7689]PETSC ERROR: Signal received
[7689]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
for trouble shooting.
[7689]PETSC ERROR: Petsc Release Version 3.6.2, unknown
[7689]PETSC ERROR: ./fsi on a arch-linux2-cxx-opt named ys6103 by fandek
Fri Nov 27 11:26:30 2015
[7689]PETSC ERROR: Configure options --with-clanguage=cxx
--with-shared-libraries=1 --download-fblaslapack=1 --with-mpi=1
--download-parmetis=1 --download-metis=1 --with-netcdf=1
--download-exodusii=1
--with-hdf5-dir=/glade/apps/opt/hdf5-mpi/1.8.12/intel/12.1.5
--with-debugging=no --with-c2html=0 --with-64-bit-indices=1
[7689]PETSC ERROR: #1 User provided function() line 0 in  unknown file
Abort(59) on node 7689 (rank 7689 in comm 1140850688): application called
MPI_Abort(MPI_COMM_WORLD, 59) - process 7689
ERROR: 0031-300  Forcing all remote tasks to exit due to exit code 1 in
task 7689

Make and configure logs are attached.

Thanks,

Fande Kong,
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20151127/f4873dc9/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: configure_log
Type: application/octet-stream
Size: 4911198 bytes
Desc: not available
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20151127/f4873dc9/attachment-0002.obj>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: make_log
Type: application/octet-stream
Size: 103842 bytes
Desc: not available
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20151127/f4873dc9/attachment-0003.obj>