Re: Help building a desktop for namd

From: Jeffrey Potoff (jpotoff_at_chem1.eng.wayne.edu)
Date: Thu Apr 14 2011 - 00:07:16 CDT

For $6,500 each, I was able to build 4-way 2.3 GHz 8 core Opteron
machines with 64 GB of ram. I started with a Supermicro barebone
AS-2042G-6RF.

http://www.newegg.com/Product/Product.aspx?Item=N82E16816101321

And added CPUs

http://www.newegg.com/Product/Product.aspx?Item=N82E16819105265

and RAM. The nice thing about the Supermicro barebones is that the come
with the heat sinks, so all you need to do is drop in the CPUs and ram,
and you are ready to go.

I went with 2U instead of the 1U because it was all I could get at the
time. If I was doing it now, I'd probably go with the 1U to save $500 a
node. You might save some money by going with less ram, but you will
still need a lot of sticks because the board needs to be populated in
multiples of 4. These things are very loud. I would not want to work
in the same office with one under full load. Hide it in a closet and
you should be ok.

You will have a hard time finding a typical "PC" type setup for this
because the 4-way motherboards have a unique form factor and are larger
than EATX. Last summer I was looking for a chassis to fit such a
board and gave up. Much easier to go with the motherboard/chassis combo.

Regards,
     Jeff

On 4/13/2011 6:06 PM, Gianluca Interlandi wrote:
> Hi Salvador,
>
> Just a thought:
>
> http://www.newegg.com/Product/Product.aspx?Item=N82E16859105793&cm_re=opteron-_-59-105-793-_-Product
>
>
> An example of a 4x 12-core opteron node.
>
> So far, I have not been able to find a "classic" PC built with 4x
> 12-core opteron. Does it exist? I was able to find a motherboard which
> supports a 4x 12-core:
>
> http://www.newegg.com/Product/Product.aspx?Item=N82E16813151219
>
> but can you mount it in a tower case?
>
> Gianluca
>
> On Wed, 13 Apr 2011, Salvador H-V wrote:
>
>> Hi all,
>>
>> Thanks a lot to all of you people who share their experience with me.
>>
>> I found your comments and ideas very useful!
>>
>> I think we have a very good starting point. Of course, I will be
>> checking the mail
>> list for new ideas.
>>
>> Kind regards,
>>
>> Salvador Herrera Velarde
>>
>>
>>
>
> -----------------------------------------------------
> Gianluca Interlandi, PhD gianluca_at_u.washington.edu
> +1 (206) 685 4435
> http://artemide.bioeng.washington.edu/
>
> Postdoc at the Department of Bioengineering
> at the University of Washington, Seattle WA U.S.A.
> -----------------------------------------------------

-- 
======================================================================
Jeffrey J. Potoff			  jpotoff_at_chem1.eng.wayne.edu
Associate Professor			  Wayne State University		
Department of Chemical Engineering and Materials Science
5050 Anthony Wayne Dr			  Phone:(313)577-9357		
Detroit, MI 48202  	                  Fax:  (313)578-5815
http://potoff1.eng.wayne.edu
======================================================================

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