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korsedal at zaiqtech.com korsedal at zaiqtech.comSat Dec 1 09:55:50 PST 2001
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Please unsubscribe korsedal at zaiqtech.com -----Original Message----- From: beowulf-request at beowulf.org [mailto:beowulf-request at beowulf.org] Sent: Saturday, December 01, 2001 12:01 PM To: beowulf at beowulf.org Subject: Beowulf digest, Vol 1 #670 - 13 msgs Send Beowulf mailing list submissions to beowulf at beowulf.org To subscribe or unsubscribe via the World Wide Web, visit http://www.beowulf.org/mailman/listinfo/beowulf or, via email, send a message with subject or body 'help' to beowulf-request at beowulf.org You can reach the person managing the list at beowulf-admin at beowulf.org When replying, please edit your Subject line so it is more specific than "Re: Contents of Beowulf digest..." Today's Topics: 1. Re:Xbox clusters? (W Bauske) 2. Re:mpi-prog porting from lam -> scyld beowulf mpi difficulties (Sean Dilda) 3. MPI I/O + nfs (Bill Broadley) 4. Re:Xbox clusters? (Tim Wait) 5. Portland High Performance Fortran pghpf on Scyld cluster (Hans Schwengeler) 6. time command defaults changed in RedHat 7.2 vs RedHat 6.2? (Phillip D. Matz) 7. Re:MPI I/O + nfs (Rob Latham) 8. Scyld boot problem (L. Gritsenko) 9. Re:Xbox clusters? (Velocet) 10. Re:Xbox clusters? (W Bauske) 11. Re:MPI I/O + nfs (Ron Chen) 12. RE:GCC/Fortran 90/95 questions (Ron Chen) 13. Process zombies in master node (with Scyld) (Carlos J. Garcia Orellana) --__--__-- Message: 1 Date: Thu, 29 Nov 2001 15:45:31 -0600 From: "W Bauske" <wsb at paralleldata.com> Organization: PDS Inc. CC: beowulf at beowulf.org Subject: Re: Xbox clusters? To: beowulf at beowulf.org (rfc822 Compliance issue To: added by system POTENTIAL SPAM) Steve Gaudet wrote: > > > > They buy from IBM/Compaq/HP or pick your favorite mainstream vendor. > > If you find a Compaq GEM partner(we are), your fall into Government, > Educational, and Medical category, you can't beat the deals Compaq is > offering right now. For New England they have a Evo D500, PIV 1.5Ghz, 845, > 20Gb, 256mb, WIN2000, CD for $667.00 up to December 12th. Moreover if its a > quantity they do even better on the price. > Wonder why medical? That's big business. I'm in business to make money with clusters so I guess I wouldn't qualify for that program. However, I can build an equivalent node for less than $500. (Skipping the CD and win2k which I have no use for) d845wnl $130 P4 1.5ghz $152 Case/PS $30 20GB disk $63 256MB dimm $30 AGP card $20 ============== total $425 Shipping would be around $35 delivered to your door. All you need is a screw driver to assemble... The d845wnl has 10/100 built in and is PXE bootable. If you like P4 1.9Ghz systems, add $120 and you have a screaming node for $545. (if you like P4's for your codes) It's amazing how cheap nodes are now. Wes --__--__-- Message: 2 Date: Thu, 29 Nov 2001 18:46:10 -0500 From: Sean Dilda <agrajag at scyld.com> To: Peter Beerli <beerli at genetics.washington.edu> Cc: beowulf at beowulf.org Subject: Re: mpi-prog porting from lam -> scyld beowulf mpi difficulties --KDt/GgjP6HVcx58l Content-Type: text/plain; charset=us-ascii Content-Disposition: inline Content-Transfer-Encoding: quoted-printable On Wed, 28 Nov 2001, Peter Beerli wrote: > (1) if I run "top" why do I see 6 processes running when I start > with mpirun -np 3 migrate-n ?=20 Two per node. For every process your want running, it also runs another one to take care of the MPI network I/O. Our MPI is based off of mpich, and this is how they have it setup. --KDt/GgjP6HVcx58l Content-Type: application/pgp-signature Content-Disposition: inline -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.0.6 (GNU/Linux) Comment: For info see http://www.gnupg.org iD8DBQE8BsjB+pq97aGGtXARAoeTAJ0SiJn+qfA3EPoX+XxeEooDXY8mUQCgpdbs bP8txC3qs6H0fRX9HxpX/WU= =0x+f -----END PGP SIGNATURE----- --KDt/GgjP6HVcx58l-- --__--__-- Message: 3 Date: Thu, 29 Nov 2001 20:34:02 -0800 From: Bill Broadley <bill at math.ucdavis.edu> To: beowulf at beowulf.org Subject: MPI I/O + nfs I'm trying to get MPICH-1.2.2.3 MPI I/O + nfs working. I read: http://www-unix.mcs.anl.gov/mpi/mpich/docs/install/node31.htm Step 1: ~/private/io> /usr/sbin/rpcinfo -p `hostname` | grep nfs 100003 2 udp 2049 nfs 100003 3 udp 2049 nfs I'm using clients n1 and n2: n2:~> mount | grep noac master:/d0 on /d0 type nfs (rw,nfsvers=3,noac,addr=192.168.0.250) n1:~> mount | grep noac master:/d0 on /d0 type nfs (rw,nfsvers=3,noac,addr=192.168.0.250) Just to make absolutely sure I'm using nfs 3 I ran nfstats, I ran on n1 and n2 (same result): Client nfs v2: null getattr setattr root lookup readlink 0 0% 0 0% 0 0% 0 0% 0 0% 0 0% read wrcache write create remove rename 0 0% 0 0% 0 0% 0 0% 0 0% 0 0% link symlink mkdir rmdir readdir fsstat 0 0% 0 0% 0 0% 0 0% 0 0% 0 0% Client nfs v3: null getattr setattr lookup access readlink 0 0% 222540 54% 83 0% 10010 2% 52 0% 53 0% read write create mkdir symlink mknod 67772 16% 103571 25% 2070 0% 2 0% 0 0% 0 0% remove rmdir rename link readdir readdirplus 2068 0% 2 0% 0 0% 0 0% 172 0% 0 0% fsstat fsinfo pathconf commit 356 0% 356 0% 0 0% 1372 0% When running a very simple MPI I/O example I stil get: File locking failed in ADIOI_Set_lock. If the file system is NFS, you need to use NFS version 3 and mount the directory with the 'noac' option (no attribute caching). Anyone have any ideas? Anyone know of an MPICH mailing list? Additional info: n1:~> uname -a Linux n1 2.4.9 #5 SMP Wed Sep 26 19:59:17 GMT-7 2001 i686 unknown n2:~> uname -a Linux n2 2.4.9 #5 SMP Wed Sep 26 19:59:17 GMT-7 2001 i686 unknown -- Bill Broadley Mathematics/Institute of Theoretical Dynamics UC Davis --__--__-- Message: 4 Date: Wed, 28 Nov 2001 15:07:47 -0500 From: Tim Wait <TIMOTHY.R.WAIT at saic.com> To: beowulf at beowulf.org Subject: Re: Xbox clusters? > So, the question is, with these numbers, how do people end up spending > $250K on 40 or even 60-CPU clusters? > Um, high speed interconnect at $1500/box, quality components, >=512 MB per proc, rackmounts, big h/w raid storage, A/C... tim --__--__-- Message: 5 Date: Thu, 29 Nov 2001 14:24:30 +0100 From: Hans Schwengeler <schweng at master2.astro.unibas.ch> To: beowulf at beowulf.org Subject: Portland High Performance Fortran pghpf on Scyld cluster Hello, I want to use pghpf on our new Scyld cluster (b27-8). pgf77 and pgf90 work ok, but pghpf appears to hang during execution of the resulting program. First trial was to point /usr/local/mpi/lib to /usr/lib/, second try was building mpich-1.2.1 (from the Scyld ftp site after applying the patches). Both have the result that f77 and f90 work, but NOT pghpf. I also tried the advice from the pgi FAQ and replaced mpi.o in /usr/local/pgi/linux86/lib/libpghpf_mpi.a but to no avail. Test program is /home/schweng/util/mpich-1.2.1-6.6.beo/mpich-1.2.1/installtest/pi3.f. /usr/local/bin/mpirun -np 2 pi3 Process 0 of 2 is alive Enter the number of intervals: (0 quits) <-- here it hangs, i.e. Process 1 comes never to live. Yours, Hans Schwengeler. --__--__-- Message: 6 From: "Phillip D. Matz" <matz at wsunix.wsu.edu> To: <beowulf at beowulf.org> Subject: time command defaults changed in RedHat 7.2 vs RedHat 6.2? Date: Fri, 30 Nov 2001 10:59:14 -0800 I am used to keeping track of the actual time (elapsed) a job takes to complete on my cluster with the command line option "time" in RedHat 6.2. Recently I reinstalled RedHat 7.2 and now the "time" command yields different results (as if the portable option "-p" is always on). The man pages only help to tell me why the output looks the way it does, but doesn't tell me how to change the default back to what it looks like in a 6.2 installation. Does anyone know which file I need to modify to make the time command report the total elapsed time and not have the output be in the portable format? Thanks! Phil Matz --__--__-- Message: 7 Date: Fri, 30 Nov 2001 14:22:49 -0500 From: Rob Latham <rlatham at plogic.com> To: Bill Broadley <bill at math.ucdavis.edu> Cc: beowulf at beowulf.org Subject: Re: MPI I/O + nfs On Thu, Nov 29, 2001 at 08:34:02PM -0800, Bill Broadley wrote: > > I'm trying to get MPICH-1.2.2.3 MPI I/O + nfs working. If you want ROMIO ( MPI I/O ), i strongly suggest using pvfs as the "back end" for your file system. In the few cases i know of where a customer used nfs as the back end, performance was downright poor ( as should be expected when you have to turn off all the caching ). start here: http://parlweb.parl.clemson.edu/pvfs/index.html ==rob -- [ Rob Latham <rlatham at plogic.com> Developer, Admin, Alchemist ] [ Paralogic Inc. - www.plogic.com ] [ ] [ EAE8 DE90 85BB 526F 3181 1FCF 51C4 B6CB 08CC 0897 ] --__--__-- Message: 8 Date: Fri, 30 Nov 2001 09:31:07 -0800 (PST) From: "L. Gritsenko" <lmeerkat at yahoo.com> Subject: Scyld boot problem To: beowulf at beowulf.org Maybe this will be helpful: http://www.beowulf.org/pipermail/beowulf/2001-August/001057.html ===== __________________________________________________ Do You Yahoo!? Yahoo! GeoCities - quick and easy web site hosting, just $8.95/month. http://geocities.yahoo.com/ps/info1 --__--__-- Message: 9 Date: Fri, 30 Nov 2001 17:37:53 -0500 From: Velocet <math at velocet.ca> To: W Bauske <wsb at paralleldata.com> Cc: beowulf at beowulf.org Subject: Re: Xbox clusters? On Thu, Nov 29, 2001 at 03:45:31PM -0600, W Bauske's all... > Steve Gaudet wrote: > > > > > > > They buy from IBM/Compaq/HP or pick your favorite mainstream vendor. > > > > If you find a Compaq GEM partner(we are), your fall into Government, > > Educational, and Medical category, you can't beat the deals Compaq is > > offering right now. For New England they have a Evo D500, PIV 1.5Ghz, 845, > > 20Gb, 256mb, WIN2000, CD for $667.00 up to December 12th. Moreover if its a > > quantity they do even better on the price. > > > > Wonder why medical? That's big business. > > I'm in business to make money with clusters so I guess I wouldn't qualify > for that program. However, I can build an equivalent node for less than > $500. (Skipping the CD and win2k which I have no use for) > > d845wnl $130 > P4 1.5ghz $152 > Case/PS $30 > 20GB disk $63 > 256MB dimm $30 > AGP card $20 > ============== > total $425 > > Shipping would be around $35 delivered to your door. All you need is > a screw driver to assemble... > > The d845wnl has 10/100 built in and is PXE bootable. Any athlon boards with new chipsets that are PXE bootable? The PcChips M817 MLR has that, but its not a great board, and old chipset. /kc --__--__-- Message: 10 Date: Fri, 30 Nov 2001 17:47:14 -0600 From: "W Bauske" <wsb at paralleldata.com> Organization: PDS Inc. CC: beowulf at beowulf.org Subject: Re: Xbox clusters? To: beowulf at beowulf.org (rfc822 Compliance issue To: added by system POTENTIAL SPAM) I PXE boot my tiger MP's (s2460) with Intel pro/100 pci adapters. Adapters go for about $27 which I thought was fair to allow me to boot/install without a floppy or CD. The floppy and CD combined are more than that typically. The boards I've used that have built-in Enet for Athlon have used some sort of Netware boot capability which I know nothing about. (K7S5A I think) Wes Velocet wrote: > > On Thu, Nov 29, 2001 at 03:45:31PM -0600, W Bauske's all... > > Steve Gaudet wrote: > > > > > > > > > > They buy from IBM/Compaq/HP or pick your favorite mainstream vendor. > > > > > > If you find a Compaq GEM partner(we are), your fall into Government, > > > Educational, and Medical category, you can't beat the deals Compaq is > > > offering right now. For New England they have a Evo D500, PIV 1.5Ghz, 845, > > > 20Gb, 256mb, WIN2000, CD for $667.00 up to December 12th. Moreover if its a > > > quantity they do even better on the price. > > > > > > > Wonder why medical? That's big business. > > > > I'm in business to make money with clusters so I guess I wouldn't qualify > > for that program. However, I can build an equivalent node for less than > > $500. (Skipping the CD and win2k which I have no use for) > > > > d845wnl $130 > > P4 1.5ghz $152 > > Case/PS $30 > > 20GB disk $63 > > 256MB dimm $30 > > AGP card $20 > > ============== > > total $425 > > > > Shipping would be around $35 delivered to your door. All you need is > > a screw driver to assemble... > > > > The d845wnl has 10/100 built in and is PXE bootable. > > Any athlon boards with new chipsets that are PXE bootable? > > The PcChips M817 MLR has that, but its not a great board, and old chipset. > > /kc > _______________________________________________ > Beowulf mailing list, Beowulf at beowulf.org > To change your subscription (digest mode or unsubscribe) visit http://www.beowulf.org/mailman/listinfo/beowulf --__--__-- Message: 11 Date: Fri, 30 Nov 2001 19:41:47 -0800 (PST) From: Ron Chen <ron_chen_123 at yahoo.com> Subject: Re: MPI I/O + nfs To: Bill Broadley <bill at math.ucdavis.edu>, beowulf at beowulf.org There is no MPICH mailing-list. You can email the MPICH developers directly. On the other hand, you may check the LAM MPI mailing list, may be they have encountered similar problems before: http://www.lam-mpi.org/mailman/listinfo.cgi/lam-announce -Ron --- Bill Broadley <bill at math.ucdavis.edu> wrote: > Anyone have any ideas? Anyone know of an MPICH > mailing list? __________________________________________________ Do You Yahoo!? Buy the perfect holiday gifts at Yahoo! Shopping. http://shopping.yahoo.com --__--__-- Message: 12 Date: Fri, 30 Nov 2001 19:55:22 -0800 (PST) From: Ron Chen <ron_chen_123 at yahoo.com> Subject: RE: GCC/Fortran 90/95 questions To: aslam at lanl.gov, gcc at gnu.org, Beowulf <beowulf at beowulf.org> Cc: open64-devel at lists.sourceforge.net > 2) Does gcc support f90 or f95? If not is there any > GNU compiler that does, are any expected to be in > the future? There is a compiler called open64, which is SGI's compiler for IA64. They have a C front-end, which is based on gcc, and they have another for f90. (I don't know the details...) Recently, they have ported the f90 front-end and run-time to other compiler back-ends. Please read the note below for details. http://open64.sourceforge.net/ http://sourceforge.net/tracker/?group_id=34861&atid=413342 -Ron =========================================================== Porting open64 F90 front-end to Solaris This patch ports the open64 Fortran90 compiler front end to sparc_solaris platform. Specifically, it ports these three executable programs: "mfef90", "ir_tools", and "whirl2f". ANY OTHER COMPONENT OF OPEN64 IS NOT IN THE SCOPE OF THIS PATCH. Tested platforms include sparc_solaris, mips_irix and ia32_linux, using both GNU gcc and vendor compiler. Makefiles, some header files and some c/c++ source files were modified for porting. __________________________________________________ Do You Yahoo!? Buy the perfect holiday gifts at Yahoo! Shopping. http://shopping.yahoo.com --__--__-- Message: 13 From: "Carlos J. Garcia Orellana" <carlos at nernet.unex.es> To: <beowulf at beowulf.org> Subject: Process zombies in master node (with Scyld) Date: Sat, 1 Dec 2001 11:10:00 +0100 This is a multi-part message in MIME format. ------=_NextPart_000_0025_01C17A58.B7EEDD40 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable Hello, We have a problem with bproc and zombies processes. We are using a = genetic algorithm application MPI based. In our aplication, we are executing a external program via system() = call. The problem is that many of these new processes are zombies in the = master node, however, they don=B4t appear as zombie in the slaves nodes. We are using Scyld 27z-8 with updates. What can we do to solve this problem? Thanks. Carlos ------=_NextPart_000_0025_01C17A58.B7EEDD40 Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN"> <HTML><HEAD> <META http-equiv=3DContent-Type content=3D"text/html; = charset=3Diso-8859-1"> <META content=3D"MSHTML 5.50.4616.200" name=3DGENERATOR> <STYLE></STYLE> </HEAD> <BODY bgColor=3D#ffffff> <DIV><FONT face=3DArial size=3D2>Hello,</FONT></DIV> <DIV><FONT face=3DArial size=3D2></FONT> </DIV> <DIV><FONT face=3DArial size=3D2>We have a problem with bproc and = zombies processes.=20 We are using a genetic algorithm application MPI based.</FONT></DIV> <DIV><FONT face=3DArial size=3D2>In our aplication, we are executing a = external=20 program via system() call.</FONT></DIV> <DIV><FONT face=3DArial size=3D2>The problem is that many of these new = processes are=20 zombies in the master node, however, they don=B4t appear as zombie in = the slaves=20 nodes.</FONT></DIV> <DIV><FONT face=3DArial size=3D2>We are using Scyld 27z-8 with = updates.</FONT></DIV> <DIV><FONT face=3DArial size=3D2>What can we do to solve this = problem?</FONT></DIV> <DIV><FONT face=3DArial size=3D2></FONT> </DIV> <DIV><FONT face=3DArial size=3D2>Thanks.</FONT></DIV> <DIV><FONT face=3DArial size=3D2></FONT> </DIV> <DIV><FONT face=3DArial size=3D2>Carlos</FONT></DIV></BODY></HTML> ------=_NextPart_000_0025_01C17A58.B7EEDD40-- --__--__-- _______________________________________________ Beowulf mailing list Beowulf at beowulf.org http://www.beowulf.org/mailman/listinfo/beowulf End of Beowulf Digest
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