[gmx-users] Assistance needed running gromacs 4.6.3 on Blue Gene/P

Bogdan Costescu bcostescu at gmail.com
Wed Aug 7 19:29:18 CEST 2013

On Wed, Aug 7, 2013 at 5:04 PM, Prentice Bisbal
<prentice.bisbal at rutgers.edu> wrote:
> I couldn't find anything explicit in the documentation, The compute node
> kernel (CNK) is proprietary, but is said to be very Linux-like, so a signal
> 6 should be the same as on Linux, which would be an abort signal.

There are several calls to abort() in the GROMACS source and probably
some more in external libs, so it's impossible to know where it fails;
it's also possible that the signal comes from outside GROMACS. It
would be very helpful to run a debug build and obtain a backtrace, as
suggested by Mark.


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