[gmx-users] Buffer overflow on Fedora 10

Jussi Lehtola jussi.lehtola at helsinki.fi
Mon Jul 6 12:26:12 CEST 2009

On Mon, 2009-07-06 at 11:18 +0100, Adam Huffman wrote:
> I have an odd problem running the Gromacs 4.0.4 RPM installable as part 
> of Fedora 10.  On two machines, it runs fine.  On a third, each program 
> I invoke dies as a result of the buffer overflow detector in glibc.  
> Here's some example output:

> The same thing happens if I recompile the SRPM myself and install that.
> Any clues as to how to track this down would be greatly appreciated.

Install the debuginfo with
# debuginfo-install gromacs

and run gromacs with gdb:
$ gdb g_mdrun
(gdb) run -s topol.tpr (and so on.)

Gdb might tell you to install the debuginfo of other packages too.

I have been working on getting also debug binaries in the package, but I
won't push the new package until 4.0.6 is released which fixes the build
error on ppc64 architecture.
Jussi Lehtola, FM, Tohtorikoulutettava
Fysiikan laitos, Helsingin Yliopisto
jussi.lehtola at helsinki.fi, p. 191 50632
Mr. Jussi Lehtola, M. Sc., Doctoral Student
Department of Physics, University of Helsinki, Finland
jussi.lehtola at helsinki.fi

More information about the gromacs.org_gmx-users mailing list