[petsc-users] Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range

[Beheshti, Mohammadali]

Hi,

I am running a simulation using a software that solves a FEM problem. My job script is as follows:

#!/bin/bash
#PBS -N myjob
#PBS -l nodes=1:ppn=8
#PBS -l walltime=120:00:00
#PBS -l mem=32000MB
module load openmpi/2.0.0
cd /cluster/home/t48263uhn/Carp/PlosOneData/
mpirun -np 8 carp.debug.petsc.pt +F /cluster/home/t48263uhn/Carp/PlosOneData/parameters_ECG_adjust.par

When I run this job I get following PETSC error:

[5]PETSC ERROR: ------------------------------------------------------------------------
[5]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range
[5]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[5]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind
[5]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
[5]PETSC ERROR: likely location of problem given in stack below
[5]PETSC ERROR: ---------------------  Stack Frames ------------------------------------
[5]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
[5]PETSC ERROR:       INSTEAD the line number of the start of the function
[5]PETSC ERROR:       is given.
[5]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------
[5]PETSC ERROR: Signal received
[5]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.
[5]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016
[5]PETSC ERROR: carp.debug.petsc.pt on a linux-gnu named node46.uhnh4h.cluster by t48263uhn Wed Nov 16 10:50:03 2016
[5]PETSC ERROR: Configure options --with-petsc-arch=linux-gnu --with-debugging=yes --with-mpi-dir=/cluster/tools/software/openmpi/2.0.0/ --download-ml=yes --download-fblaspack=yes -PETSC_ARCH=linux-gnu --download-superlu_dist=yes --download-superlu=yes --download-hypre=yes --download-mumps=yes --download-scalapack=yes --download-blacs=yes --download-hdf5=yes --download-metis=yes --download-parmetis=yes --download-pastix=yes --download-ptscotch=yes --download-sundials=yes --with-shared-libraries=1
[5]PETSC ERROR: #1 User provided function() line 0 in  unknown file

I appreciate any help in finding the cause of the error.

Best Regards,

Ali

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