Re: [Beowulf] newbie

2009-04-20 Thread John Hearns
ps. please take my advice about not spending time on systems install/systems administration. You have eight machines - get stuck in now and concentrate on getting Openfoam to run, which will be pretty interesting. And I'm really interested in what you find with Openfoam - report back to us how hard

Re: [Beowulf] newbie

2009-04-20 Thread John Hearns
2009/4/20 Tomislav Maric : > Hi everyone, > > I'm a mechanical engineering graduate student from Croatia (Europe :) and > I'm doing computational continuum mechanics simulations using OpenFOAM > (http://www.opencfd.co.uk/openfoam/). Sounds good! > >     I have a NOW (6 workstations) running OpenS

[Beowulf] newbie

2009-04-20 Thread Tomislav Maric
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[Beowulf] Re: doubt about job queuing systems

2009-04-20 Thread Heiner Grill
Hello, do you know that there is an open source, entry level version of LSF available named Lava from http://www.hpccommunity.org/index.php?pageid=lava This might be helpful if you want to test without buying LSF licenses. Best regards, Heiner -- Message:

Re: [Beowulf] simulating worst case behavior from my cluster. request 8 cpus such that no two are on the same node.

2009-04-20 Thread Micha Feigin
On Mon, 20 Apr 2009 15:46:34 -0500 Rahul Nabar wrote: > I am trying to simulate worst-case behavior of a job on our cluster > where one job would get 8 cpus but one each from a different > compute-server. Each server has 8cpus. > > How can I do that? Server names: noce01 through node23. Schedule

[Beowulf] Re: [torqueusers] simulating worst case behavior from my cluster. request 8 cpus such that no two are on the same node.

2009-04-20 Thread Troy Baer
On Mon, 2009-04-20 at 16:13 -0500, Rahul Nabar wrote: > On Mon, Apr 20, 2009 at 3:53 PM, Victor Gregorio > wrote: > > 1) Request 8 nodes at 1 processor each: > > #PBS -l nodes=8:ppn=1 > > Did not work. I got assigned > > node18, node18, node18, node18,node18,node18,node07,node07 > > Is my P

[Beowulf] Workshops for parallel/distributed computing, computational thinking, etc. (free)

2009-04-20 Thread Charlie Peck
Slightly off-topic (but not too far): The SuperComputing (SC) Education Program is a year-long program working with undergraduate faculty and students (undergraduate and graduate) to integrate computational science and high performance computing and communications technologies highlighted through

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Rayson Ho
In fact there not a lot of benefit for Oracle to end MySQL R&D. Monty (Michael Widenius), one of the founders of MySQL AB, left Sun in Feb 2009. He forked MySQL and founded MariaDB. With some portion of the $1B Sun paid for the MySQL acquisition in his pocket, he can grow the company and get many

Re: [Beowulf] Torque Error: multi-req PBS jobs not allowed

2009-04-20 Thread Rahul Nabar
On Mon, Apr 20, 2009 at 5:11 PM, Greg Lindahl wrote: > On Mon, Apr 20, 2009 at 04:59:31PM -0500, Rahul Nabar wrote: > >> Why would PBS-Torque not allow this and my previous threads >> "JOBNODEMATCHPOLICY EXACTNODE" by default? Are there any reasons not >> to use them? The compromise is not obvious

Re: [Beowulf] Torque Error: multi-req PBS jobs not allowed

2009-04-20 Thread Greg Lindahl
On Mon, Apr 20, 2009 at 04:59:31PM -0500, Rahul Nabar wrote: > Why would PBS-Torque not allow this and my previous threads > "JOBNODEMATCHPOLICY EXACTNODE" by default? Are there any reasons not > to use them? The compromise is not obvious to me. In general it's most efficient to have a job use wh

[Beowulf] Torque Error: multi-req PBS jobs not allowed

2009-04-20 Thread Rahul Nabar
Often I need to request 9 cpus on our architecture with 8 cpus/server. In such situations it makes sense to ask for a full server (8 cpus) plus 1 more cpu wherever I can get it. What is the best request to do this? [Scheduler: PBS-Torque; Super-scheduler: Maui] I am trying #PBS -l nodes=1:ppn=8+1

[Beowulf] Re: [torqueusers] simulating worst case behavior from my cluster. request 8 cpus such that no two are on the same node.

2009-04-20 Thread Rahul Nabar
On Mon, Apr 20, 2009 at 4:19 PM, Troy Baer wrote: > The default settings in Maui allow it to pack tasks on a host like this. > Try setting the following in your maui.cfg file and see if it makes a > difference: > > JOBNODEMATCHPOLICY EXACTNOD Thanks Troy; I checked. I do not have that line. I'll

[Beowulf] Re: [torqueusers] simulating worst case behavior from my cluster. request 8 cpus such that no two are on the same node.

2009-04-20 Thread Rahul Nabar
On Mon, Apr 20, 2009 at 3:53 PM, Victor Gregorio wrote: > 2) Request each node by hostname and use 1 processor each: >   #PBS -l nodes=node1:ppn=1+node2:ppn=1+node3:ppn=1 ... Thanks Victor. The second solution is working correctly. -- Rahul ___ Beowu

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Chris Samuel
- "Tiago Marques" wrote: > Except when it comes to RDBMS. Allegedly.. # MySQL will be an addition to Oracle’s existing suite # of database products, which already includes Oracle # Database 11g, TimesTen, Berkeley DB open source # database, and the open source transactional storage # engin

[Beowulf] Re: [torqueusers] simulating worst case behavior from my cluster. request 8 cpus such that no two are on the same node.

2009-04-20 Thread Rahul Nabar
On Mon, Apr 20, 2009 at 3:53 PM, Victor Gregorio wrote: > 1) Request 8 nodes at 1 processor each: >   #PBS -l nodes=8:ppn=1 Did not work. I got assigned node18, node18, node18, node18,node18,node18,node07,node07 Is my PBS/Torque mis-configured or is this the right behavior to expect? > 2) Re

[Beowulf] simulating worst case behavior from my cluster. request 8 cpus such that no two are on the same node.

2009-04-20 Thread Rahul Nabar
I am trying to simulate worst-case behavior of a job on our cluster where one job would get 8 cpus but one each from a different compute-server. Each server has 8cpus. How can I do that? Server names: noce01 through node23. Scheduler PBS-Torque Super-scheduler MAUI Normally I request using: #PBS

[Beowulf] Re: Oracle buys Sun

2009-04-20 Thread Jason Riedy
And Robert G. Brown writes: > Besides, way too many of us long since moved to Linux and are hardly > even properly nostalgic for SunOS 4.3 or Sunview anymore. I believe you mean 4.1.3, although 4.1.4 had handy bug fixes. ;) Jason ___ Beowulf mailing li

Re: [Beowulf] Anyone having IPMI problems on Intel S3200 series motherboards?

2009-04-20 Thread Greg Lindahl
On Mon, Apr 20, 2009 at 07:22:40AM -0400, Joe Landman wrote: > We've found that, for nodes like this, when you reboot the machine, the > OS tears down the NIC setup, and things like arp responses suddenly > disappear. Which means either keeping a log of arp -> IP mapping, as > the nics, wit

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Tiago Marques
On Mon, Apr 20, 2009 at 2:57 PM, Robert G. Brown wrote: > On Mon, 20 Apr 2009, Tiago Marques wrote: > > and Sun have been natural competitors for years; Oracle and Sun have >> been natural partners. >> >> Except when it comes to RDBMS. >> > > Aw, I'm just quoting the hype on Sun's website. It s

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Joe Landman
Jeff Layton wrote: Tim Cutts wrote: On 20 Apr 2009, at 12:42 pm, Chris Dagdigian wrote: It's official: http://www.sun.com/third-party/global/oracle/index.jsp So, what's going to happen to Lustre now, I wonder? Tim I think this is a very interesting question. Some corollary questions are,

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Robert G. Brown
On Mon, 20 Apr 2009, Tiago Marques wrote: and Sun have been natural competitors for years; Oracle and Sun have been natural partners. Except when it comes to RDBMS. Aw, I'm just quoting the hype on Sun's website. It says right there: Sun and Oracle are natural partners. Or something like th

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Robert G. Brown
On Mon, 20 Apr 2009, Jeff Layton wrote: - Will Skippy make it out of the cave alive? I'll put the question to Satchmo, our border collie. He likes to play "Timmy's in the well" with us -- insisting on going out, then scratching to come in, but then {\em not} coming in, looking up at us expect

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Tiago Marques
On Mon, Apr 20, 2009 at 1:42 PM, Robert G. Brown wrote: > On Mon, 20 Apr 2009, Chris Dagdigian wrote: > > >> It's official: >> http://www.sun.com/third-party/global/oracle/index.jsp >> >> -Chris >> > > Guess that means Oracle is no longer looking at Red Hat...;-) > > Maybe IBM will turn around an

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Jeff Layton
Tim Cutts wrote: On 20 Apr 2009, at 12:42 pm, Chris Dagdigian wrote: It's official: http://www.sun.com/third-party/global/oracle/index.jsp So, what's going to happen to Lustre now, I wonder? Tim I think this is a very interesting question. Some corollary questions are, - What is going to h

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Tim Cutts
On 20 Apr 2009, at 12:42 pm, Chris Dagdigian wrote: It's official: http://www.sun.com/third-party/global/oracle/index.jsp So, what's going to happen to Lustre now, I wonder? Tim -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England

Re: [Beowulf] Problem with ext3 filesystem?

2009-04-20 Thread Eugen Leitl
On Mon, Apr 20, 2009 at 09:50:45PM +1000, Chris Samuel wrote: > > has anyone seen a performance-oriented comparison > > of zfs with alternatives? > > Somewhat dated now (tests done mid 2007) but here's a > summary of the Bonnie results for a whole bunch of > Linux filesystems plus ZFS on Nexenta

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Douglas Eadline
Oh great I just got my head around the whole Rackable/SGI deal: Expediting Synergistic Paradigms (http://www.linux-mag.com/id/7298) Now this? -- Doug > > It's official: > http://www.sun.com/third-party/global/oracle/index.jsp > > -Chris > > ___ > B

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Robert G. Brown
On Mon, 20 Apr 2009, John Hearns wrote: I guess there are now two men with black suits and ties waiting in reception for me... Only if you use thorium to fuel your cleverly disguised antigrav motor scooter and are actually from a midsized planet near Arcturus. If so, I'm sure you signed the s

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Robert G. Brown
On Mon, 20 Apr 2009, Chris Dagdigian wrote: It's official: http://www.sun.com/third-party/global/oracle/index.jsp -Chris Guess that means Oracle is no longer looking at Red Hat...;-) Maybe IBM will turn around and buy Red Hat. Which would actually be a brilliant move on their part, I think

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread John Hearns
2009/4/20 Chris Dagdigian : > > It's official: > http://www.sun.com/third-party/global/oracle/index.jsp > This makes me for one a little happier than an IBM takeover - we don't need a monoculture in IT. And going out slightly on a limb, any times I've seen IBM deals with clusters you get IBM solut

Re: [Beowulf] Oracle buys Sun

2009-04-20 Thread Chris Samuel
- "Chris Dagdigian" wrote: > It's official: > http://www.sun.com/third-party/global/oracle/index.jsp Hmm.. Oracle have now inherited the NetApp/Sun WAFL/ZFS patent lawsuit(s) too I would guess, along with Solaris and ZFS... Could be make life interesting for the Oracle btrfs developers too

Re: [Beowulf] Problem with ext3 filesystem?

2009-04-20 Thread Chris Samuel
- "Mark Hahn" wrote: > has anyone seen a performance-oriented comparison > of zfs with alternatives? Somewhat dated now (tests done mid 2007) but here's a summary of the Bonnie results for a whole bunch of Linux filesystems plus ZFS on Nexenta (OpenSolaris): http://www.csamuel.org/articles

[Beowulf] Oracle buys Sun

2009-04-20 Thread Chris Dagdigian
It's official: http://www.sun.com/third-party/global/oracle/index.jsp -Chris ___ Beowulf mailing list, Beowulf@beowulf.org sponsored by Penguin Computing To change your subscription (digest mode or unsubscribe) visit http://www.beowulf.org/mailman/li

Re: [Beowulf] Anyone having IPMI problems on Intel S3200 series motherboards?

2009-04-20 Thread Joe Landman
Henning Fehrmann wrote: Hi Greg, On Mon, Apr 20, 2009 at 01:28:50AM -0700, Greg Lindahl wrote: On Mon, Apr 20, 2009 at 09:24:09AM +0200, Henning Fehrmann wrote: We also had this problem with Supermicro boards and IPMI cards in a large scale. Finally we found a solution by upgrading the firmwar

Re: [Beowulf] Re: Cluster doesn't like being moved (Steve Herborn)

2009-04-20 Thread Chris Samuel
- "John Hearns" wrote: > This is good advice. I once participated in a move of clusters to a > new building at an oil company. I was very, very impressed with > their professionalism. At the other end of the scale I came across a group who had moved a small IBM Cluster 1350 from building t

Re: [Beowulf] Anyone having IPMI problems on Intel S3200 series motherboards?

2009-04-20 Thread Henning Fehrmann
Hi Greg, On Mon, Apr 20, 2009 at 01:28:50AM -0700, Greg Lindahl wrote: > On Mon, Apr 20, 2009 at 09:24:09AM +0200, Henning Fehrmann wrote: > > > We also had this problem with Supermicro boards and IPMI cards in a large > > scale. Finally we found a solution by upgrading the firmware of the NICs >

Re: [Beowulf] Re: Beowulf Digest, Vol 62, Issue 27

2009-04-20 Thread Chris Samuel
- "James Cuff" wrote: > So anyway, just recently at the advice from some of our Sr. > sysadmins, we started out over here in the other Cambridge > with this thing called puppet, in our HPC environment... We run Puppet on our standard service boxes (not HPC) and found that Puppet could OOM t

Re: [Beowulf] Anyone having IPMI problems on Intel S3200 series motherboards?

2009-04-20 Thread Chris Samuel
- "Perry E. Metzger" wrote: > Unfortunately, every once in a while, the IPMI BMCs > on my test systems simply stop talking to the network. We had the situation where the standard CentOS 5.x kernel would kill the IPMI adapter on our SuperMicro cluster until we pulled the power and booted int

Re: [Beowulf] Anyone having IPMI problems on Intel S3200 series motherboards?

2009-04-20 Thread Greg Lindahl
On Mon, Apr 20, 2009 at 09:24:09AM +0200, Henning Fehrmann wrote: > We also had this problem with Supermicro boards and IPMI cards in a large > scale. Finally we found a solution by upgrading the firmware of the NICs > which are > actually from Intel. I take it that you didn't get the version wi

Re: [Beowulf] Anyone having IPMI problems on Intel S3200 series motherboards?

2009-04-20 Thread Henning Fehrmann
On Wed, Apr 15, 2009 at 04:51:57PM -0400, Perry E. Metzger wrote: > > In our brand new cluster, we're using Intel S3210SH motherboards. > > The boards are going to be managed by a pure hands off system I've > built. IPMI is used for tasks like monitoring and telling the boards to > PXE boot so th