Opterons (was Re: [Bioclusters] Any issues porting applications to OS X?)

LAI Loong Fong bioclusters@bioinformatics.org
Sat, 06 Mar 2004 10:14:23 +0800

My IBM e325 came with Redhat AS. My Sun v20z came with nothing, but Sun will
be sending me both SuSE and Redhat to be installed on them.

LAI Loong-Fong
Bioinformatics Institute

On 6/3/04 12:39 AM, "Chris Dagdigian" <dag@sonsorol.org> wrote:

> The opteron mention brings up another question I wanted to ask this list--
> What Linux distributions are people using for Opteron based machines?
> I have a pair of IBM e325 opteron servers in the lab/office and
> initially have been using Suse 9.0 on them mainly because I know that
> IBM and Suse are tight and I figured that it would be the safe choice
> since I'm still slightly worried about the somewhat new support for
> Suse 9 on Opteron has been great so far. I'm going to start
> experimenting with Tao Linux (www.taolinux.org) which is a 'generic'
> form of RH Enterprise Linux built from source rpm files next.
> After Tao I want to try Fedora, Fedora-legacy and the actual Redhat
> branded AS or ES products. Anything else I should try? any
> recommendations from people using opterons in production settings?
> -Chris
> Arnie Miles wrote:
>> Has anyone considered Opterons?  Our preliminary investigations indicate
>> that the Opterons have a considerably better bang/buck ratio then
>> anything else out there right now, particularly Xeon, even in 32 bit
>> configuration.  We're getting dual processor Opterons in the under $3k
>> price range.
>> I'm anxious to try out my first G5 cluster one day, hopefully soon, but
>> the Opteron path makes more applications available to me.
>> Arnie Miles
>> Advanced Research Computing
>> Georgetown University
>> On Fri, 2004-03-05 at 10:53, Michael Chute wrote:
>>> For my two cents I would have to disagree with the Xeon approach.  A
>>> cluster of Xserves is probley going to give you more speed and storage
>>> for the buck than a Xeon machine.  We have  a small cluster of Xserves
>>> running osX server and we find that it is very fast, and the new g5
>>> slusters are even faster.  Another alternative that has been done in
>>> the past is to actually run Linux on Xserves.  I don't know the details
>>> of this but I do know that this has been done.  If you look at the
>>> bioteam software as well there are over 200 bioinformatics tools
>>> included with the package and they all have a gui interface which is
>>> very nice for the average user.  As far as management features you
>>> can't beat osx server.  Everything is so easy to do you don't need a
>>> bunch of IT people to do it for you.  I am a microbiologist and I admin
>>> our cluster.  I think the "most tools for bioinformatics under linux"
>>> is not exactly true.  I don't think you will find much trouble finding
>>> an osx port for most of the tools.  FYI there is going to be a webcast
>>> about the Xserve cluster for use in bioinformatics next thursday, you
>>> might want to watch, you might get some of your questions answered.
>>> http://education.apple.com/webcast/workgroupcluster/
>>> Mike
>>> Michael D. Chute
>>> BSL-3 Lab Manager
>>> Naval Medical Research Center
>>> Biological Defense Research Directorate
>>> Suite 1N29
>>> 503 Robert Grant Ave
>>> Silver Spring, MD 20910
>>> Voice: 301-319-7529
>>> Fax: 301-319-7513
>>> On Mar 5, 2004, at 10:41 AM, Tim Cutts wrote:
>>>> On 5 Mar 2004, at 15:32, Christopher Porter wrote:
>>>>> We're in the market for a cluster; most of our options are
>>>>> Xeon/Linux, but one is a cluster of XServe G5s running OS X. We're
>>>>> going to run some benchmarks to see how the performance compares, but
>>>>> some in of our group have expressed concern that 'the vast majority
>>>>> bioinformatics software is developed on Linux', and 'there may be a
>>>>> long time lag before new software is available on OS X'.
>>>> Most stuff compiles quite cleanly.  You could get bitten though with
>>>> anything that builds shared libraries.  OS X dylib bundles are *very*
>>>> different from normal UNIX shared objects.  Have a look at the
>>>> O'Reilly book "MacOS X for Unix Geeks" which is very small, but covers
>>>> some of this stuff.
>>>> There are various other gotchas as well, but I don't know about them
>>>> in detail.
>>>>> I have never had problems getting software I need to run on OS X, but
>>>>> I wondered if anyone can provide me with examples of applications
>>>>> that won't run on OS X, or are Linux only (only binaries released &
>>>>> no source available).
>>>> I suspect you'll get much more bang-per-buck with Xeon machines.
>>>> You'll also probably get better management features, although how
>>>> crucial that is rather depends on how large a cluster you want to get.
>>>> Personally, although I love Macs, and have one as my day-to-day
>>>> machine, I'm currently happier with Linux for the larger scale stuff.
>>>> Tim
>>>> -- 
>>>> Dr Tim Cutts
>>>> Informatics Systems Group
>>>> Wellcome Trust Sanger Institute
>>>> Hinxton, Cambridge, CB10 1SA, UK
>>>> _______________________________________________
>>>> Bioclusters maillist  -  Bioclusters@bioinformatics.org
>>>> https://bioinformatics.org/mailman/listinfo/bioclusters
>>> _______________________________________________
>>> Bioclusters maillist  -  Bioclusters@bioinformatics.org
>>> https://bioinformatics.org/mailman/listinfo/bioclusters
>> ==================
>> Arnie Miles
>> Systems Administrator, Advanced Research Computing (ARC)
>> Adjunct Assistant Professor, Computer Science Dept.
>> Georgetown University
>> 401 Reiss Science
>> 37th and O Streets NW,
>> Washington, DC  20057
>> 202-687-9379
>> http://www.georgetown.edu/users/adm35/   (Personal)
>> http://www.clusters.arc.georgetown.edu/  (GUPPI Initiative)
>> http://www.georgetown.edu/research/arc/  (Division)
>> ==================
>> _______________________________________________
>> Bioclusters maillist  -  Bioclusters@bioinformatics.org
>> https://bioinformatics.org/mailman/listinfo/bioclusters