[gmx-users] secure gromacs lam setup?

Erik Lindahl lindahl at sbc.su.se
Wed Aug 11 10:47:33 CEST 2004


On Aug 10, 2004, at 5:43 PM, Anton Feenstra wrote:

> Jack Howarth wrote:
>>     I have built and installed both the gromacs and gromacs-mpi rpms
>> on a dual Xenon Fedora Core 2 Linux workstation. The standard gromacs
>> works fine however it seems to only use one of the two cpus despite
>> using threaded code. Thus I am interested in setting up lam-mpi to
>> run on this box allowing gromacs to fully utilize both cpu's. However
>> I am very concerned about the security implications and have the
>> following questions....
> In short, hoping it may help, most MPI implementations, including Lam,
> have SMP specific communication routines that bypass the NIC completely
> on multi-cpu nodes. Whether this also circumvents the use of rsh for
> slave process spawning, I am not sure, but it would seem likely that
> a mechanism is present in the MPI package that doen't need rsh to start
> multiple processes of a parallel job on the same host.

LAM-MPI should be pretty good security-wise, since it does not have any 
daemon running as root, in contrast to e.g. MPICH.


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