[petsc-users] If valgrind says no memory prolbem.

(Rebecca) Xuefei YUAN xy2102 at columbia.edu
Wed Apr 21 04:34:39 CDT 2010

Dear all,

I checked the code with valgrind, and there is no memory problem, but  
when running parallelly, there is a message like

[0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,  
probably memory access out of range
srun: error: task 0: Exited with exit code 59
[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/troubleshooting.html#Signal[0]PETSC ERROR: or try http://valgrind.org on linux or man libgmalloc on Apple to find memory corruption  
[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: Petsc Release Version 3.0.0, Patch 7, Mon Jul  6  
11:33:34 CDT 2009
[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: /tmp/lustre/home/xy2102/April2110/die0/./twqt2ff.exe  
on a linux-c-g named sci-m0n0.scsystem by xy2102 Wed Apr 21 05:30:10  
[0]PETSC ERROR: Libraries linked from  
[0]PETSC ERROR: Configure run at Mon Jul 20 13:56:37 2009
[0]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif77  
--with-mpiexec=srun --with-debugging=1 --with-fortran-kernels=generic  
--with-shared=0 --CFLAGS=-G0 --FFLAGS=-G0
[0]PETSC ERROR: User provided function() line 0 in unknown directory  
unknown file
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
In: PMI_Abort(59, application called MPI_Abort(MPI_COMM_WORLD, 59) -  
process 0)
srun: error: task 2-3: Killed
srun: error: task 1: Killed

What is wrong?



(Rebecca) Xuefei YUAN
Department of Applied Physics and Applied Mathematics
Columbia University

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