[petsc-users] segfault running src/dm/examples/tutorials/ex11f90.F

[Barry Smith]

   Please switch to petsc-3.3 (just released) http://www.mcs.anl.gov/petsc/download/index.html 

   If the problem persists then send configure.log make.log and all the output from running the example (with petsc-3.3) to petsc-maint at mcs.anl.gov

   Barry

On Jun 5, 2012, at 10:54 PM, Panruo Wu wrote:

> Dear list,
> 
> I run into a segfault when running src/dm/examples/tutorials/ex11f90.F
> 
> Intel Fortran Compiler 12.1.3; 1.6 OpenMPI; Ubuntu 12.04
> other examples compiles and runs well. 
> 
> It compiles without any warnings or errors; however it cannot run.
> Any ideas?  Error message are attached.
> 
> Thank you!
> Panruo Wu
> 
> $ mpirun -np 1 ex11f90
> [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: --------------------- Error Message ------------------------------------
> [0]PETSC ERROR: Signal received!
> [0]PETSC ERROR: ------------------------------------------------------------------------
> [0]PETSC ERROR: Petsc Release Version 3.2.0, Patch 7, Thu Mar 15 09:30:51 CDT 2012 
> [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: ex11f90 on a opmi_inte named avahome by pwu Tue Jun  5 21:44:11 2012
> [0]PETSC ERROR: Libraries linked from /home/pwu/Downloads/petsc-3.2-p7/opmi_intel_dbg/lib
> [0]PETSC ERROR: Configure run at Tue Jun  5 10:02:00 2012
> [0]PETSC ERROR: Configure options --with-blas-lapack-dir=/opt/intel/mkl/lib/intel64 --download-umfpack --download-superlu --with-x=1
> [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.
> 
> 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.
> --------------------------------------------------------------------------
> --------------------------------------------------------------------------
> mpirun has exited due to process rank 0 with PID 22293 on
> node avahome exiting improperly. There are two reasons this could occur:
> 
> 1. this process did not call "init" before exiting, but others in
> the job did. This can cause a job to hang indefinitely while it waits
> for all processes to call "init". By rule, if one process calls "init",
> then ALL processes must call "init" prior to termination.
> 
> 2. this process called "init", but exited without calling "finalize".
> By rule, all processes that call "init" MUST call "finalize" prior to
> exiting or it will be considered an "abnormal termination"
> 
> This may have caused other processes in the application to be
> terminated by signals sent by mpirun (as reported here).
> --------------------------------------------------------------------------
>