[gmx-users] Dual core on Linux

[David]

On Sat, 2005-10-08 at 00:52 -0700, leafyoung81-group at yahoo.com wrote:
> "Jim (Rui) Qiao" <ruiqiao at gmail.com> wrote: 
>         Dear gmx-users:
>          
>         I have two somewhat stupid questions regarding the dual-core
>         processor on Linux, could some one shed some light on it?
>          
>         Question 1: Does the dual core means we effectively have two
>         CPU on one machine? i.e., If run two separate jobs on a dual
>         core machine, does it equivalent to running these two jobs on
>         two separate machines? (assume the memory cost, and disk
>         writing is not an issue). 
>          
>         Yes. equivalent. But advantage of dual-core is 1) cost (AMD's
>         implementation is excellent.) in terms of motherboard,
>         networking. 2) running parallel jobs. If all your job is
>         single-run, dual core will not be effective in shortening run
>         time (but shortening total run time for more than one job).
>          
>         Question 2: Does the old RedHat 9.0 support the dual core
>         technique? It appears to me that dual core machine is fairly
>         new thing. If RH9.0 is not good, what Linux distribution
>         should a gromacs user go for?
>          
>         dual-core shall be recognized as SMP. I think that RH9 gives
>         you the option to use SMP or non-SMP kernel during boot.
>         Choose SMP kernel.
>          
>         There is no preferred Linux. As gromacs' performance is mainly
>         kernel-independent. If you do md+analysis on the same
>         computer, then you need a comprehensive distribution. Fedora
>         Core 4 or CentOS 4, I recommend. Just install everything.
Just a small addition, you need a recent kernel, Centos 4.1 or Fedora 4
will work, but nor redhat 9.

>          
>         Thank you very much for your input.
>          
>         sincerely,
>          
>         Rui 
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-- 
David.
________________________________________________________________________
David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,          75124 Uppsala, Sweden
phone:  46 18 471 4205          fax: 46 18 511 755
spoel at xray.bmc.uu.se    spoel at gromacs.org   http://xray.bmc.uu.se/~spoel
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