Ubuntu 8.10 X2 Weirdness [Archive]

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augie1111

04-19-09, 07:26 AM

The screenpics will say more than I can. This not the same behaviour all the time, just certain WUs which can go up to 50hrs./WU Anyone see this before? Any ideas?

X2 3800+ @ stock speeds running native Ubuntu 8.10 BTW, one CPU can go down to %25 with the other @ %100 Thanks as always folks!:beer:

Here's the log:

augie@augie-desktopu1:~$ cd fah
augie@augie-desktopu1:~/fah$ ./fah6 -forceasm -verbosity 9 -smp

Note: Please read the license agreement (fah6 -license). Further
use of this software requires that you have read and accepted this agreement.

2 cores detected

--- Opening Log file [April 18 03:31:42 UTC]

# Linux SMP Console Edition ################################################## #
################################################## #############################

Folding@Home Client Version 6.24beta

http://folding.stanford.edu

################################################## #############################
################################################## #############################

Launch directory: /home/augie/fah
Executable: ./fah6
Arguments: -forceasm -verbosity 9 -smp

[03:31:42] - Ask before connecting: No
[03:31:42] - User name: augie (Team 13790)
[03:31:42] - User ID not found locally
[03:31:42] + Requesting User ID from server
[03:31:42] - Getting ID from AS:
[03:31:42] Connecting to http://assign.stanford.edu:8080/
[03:31:42] Posted data.
[03:31:42] Initial: 7942; - Received User ID = 4279547A731DA488
[03:31:42] - Machine ID: 1
[03:31:42]
[03:31:42] Could not open work queue, generating new queue...
[03:31:42] - Autosending finished units... [April 18 03:31:42 UTC]
[03:31:42] Trying to send all finished work units
[03:31:42] + No unsent completed units remaining.
[03:31:42] - Autosend completed
[03:31:42] - Preparing to get new work unit...
[03:31:42] + Attempting to get work packet
[03:31:42] - Will indicate memory of 1001 MB
[03:31:42] - Connecting to assignment server
[03:31:42] Connecting to http://assign.stanford.edu:8080/
[03:31:42] Posted data.
[03:31:42] Initial: 40AB; - Successful: assigned to (171.64.65.56).
[03:31:42] + News From Folding@Home: Welcome to Folding@Home
[03:31:42] Loaded queue successfully.
[03:31:42] Connecting to http://171.64.65.56:8080/
[03:31:48] Posted data.
[03:31:48] Initial: 0000; - Receiving payload (expected size: 4840780)
[03:31:57] - Downloaded at ~525 kB/s
[03:31:57] - Averaged speed for that direction ~525 kB/s
[03:31:57] + Received work.
[03:31:57] + Closed connections
[03:31:57]
[03:31:57] + Processing work unit
[03:31:57] At least 4 processors must be requested.Core required: FahCore_a2.exe
[03:31:57] Core found.
[03:31:57] Working on queue slot 01 [April 18 03:31:57 UTC]
[03:31:57] + Working ...
[03:31:57] - Calling './mpiexec -np 4 -host 127.0.0.1 ./FahCore_a2.exe -dir work/ -suffix 01 -priority 96 -checkpoint 15 -forceasm -verbose -lifeline 20258 -version 624'

[03:31:57]
[03:31:57] *------------------------------*
[03:31:57] Folding@Home Gromacs SMP Core
[03:31:57] Version 2.06 (Tue Mar 31 08:29:45 PDT 2009)
[03:31:57]
[03:31:57] Preparing to commence simulation
[03:31:57] - Ensuring status. Please wait.
[03:32:07] - Assembly optimizations manually forced on.
[03:32:07] - Not checking prior termination.
[03:32:09] - Expanded 4840268 -> 23983821 (decompressed 495.5 percent)
[03:32:09] Called DecompressByteArray: compressed_data_size=4840268 data_size=23983821, decompressed_data_size=23983821 diff=0
[03:32:09] - Digital signature verified
[03:32:09]
[03:32:09] Project: 2669 (Run 1, Clone 63, Gen 77)
[03:32:09]
[03:32:09] Assembly optimizations on if available.
[03:32:09] Entering M.D.
NNODES=4, MYRANK=1, HOSTNAME=augie-desktopu1
NNODES=4, MYRANK=2, HOSTNAME=augie-desktopu1
NNODES=4, MYRANK=0, HOSTNAME=augie-desktopu1
NNODES=4, MYRANK=3, HOSTNAME=augie-desktopu1
NODEID=2 argc=20
NODEID=3 argc=20
NODEID=1 argc=20
NODEID=0 argc=20
:-) G R O M A C S (-:

Groningen Machine for Chemical Simulation

:-) VERSION 4.0.99_development_20090307 (-:

Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.
Copyright (c) 1991-2000, University of Groningen, The Netherlands.
Copyright (c) 2001-2008, The GROMACS development team,
check out http://www.gromacs.org for more information.

:-) mdrun (-:

Reading file work/wudata_01.tpr, VERSION 3.3.99_development_20070618 (single precision)
Note: tpx file_version 48, software version 64

NOTE: The tpr file used for this simulation is in an old format, for less memory usage and possibly more performance create a new tpr file with an up to date version of grompp

Making 1D domain decomposition 1 x 1 x 4
starting mdrun '22884 system'
19500002 steps, 39000.0 ps (continuing from step 19250002, 38500.0 ps).
[03:32:21] Completed 0 out of 250000 steps (0%)
[04:06:43] Completed 2500 out of 250000 steps (1%)
[04:37:32] Completed 5000 out of 250000 steps (2%)
[05:05:41] Completed 7500 out of 250000 steps (3%)
[05:38:11] Completed 10000 out of 250000 steps (4%)
[06:09:34] Completed 12500 out of 250000 steps (5%)
[06:42:42] Completed 15000 out of 250000 steps (6%)
[07:15:16] Completed 17500 out of 250000 steps (7%)
[07:48:05] Completed 20000 out of 250000 steps (8%)
[08:20:25] Completed 22500 out of 250000 steps (9%)
[08:53:14] Completed 25000 out of 250000 steps (10%)
[09:23:37] Completed 27500 out of 250000 steps (11%)
[09:31:42] - Autosending finished units... [April 18 09:31:42 UTC]
[09:31:42] Trying to send all finished work units
[09:31:42] + No unsent completed units remaining.
[09:31:42] - Autosend completed
[09:56:32] Completed 30000 out of 250000 steps (12%)
[10:28:44] Completed 32500 out of 250000 steps (13%)
[11:01:27] Completed 35000 out of 250000 steps (14%)
[11:34:14] Completed 37500 out of 250000 steps (15%)
[12:06:18] Completed 40000 out of 250000 steps (16%)
[12:38:48] Completed 42500 out of 250000 steps (17%)
[13:12:07] Completed 45000 out of 250000 steps (18%)
[13:45:16] Completed 47500 out of 250000 steps (19%)
[14:17:55] Completed 50000 out of 250000 steps (20%)
[14:50:41] Completed 52500 out of 250000 steps (21%)
[15:23:04] Completed 55000 out of 250000 steps (22%)
[15:31:42] - Autosending finished units... [April 18 15:31:42 UTC]
[15:31:42] Trying to send all finished work units
[15:31:42] + No unsent completed units remaining.
[15:31:42] - Autosend completed
[15:54:44] Completed 57500 out of 250000 steps (23%)
[16:27:17] Completed 60000 out of 250000 steps (24%)
[17:00:40] Completed 62500 out of 250000 steps (25%)
[17:32:16] Completed 65000 out of 250000 steps (26%)
[18:03:12] Completed 67500 out of 250000 steps (27%)
[18:34:50] Completed 70000 out of 250000 steps (28%)
[19:07:13] Completed 72500 out of 250000 steps (29%)
[19:39:44] Completed 75000 out of 250000 steps (30%)
[20:11:17] Completed 77500 out of 250000 steps (31%)
[20:43:57] Completed 80000 out of 250000 steps (32%)
[21:16:37] Completed 82500 out of 250000 steps (33%)
[21:31:42] - Autosending finished units... [April 18 21:31:42 UTC]
[21:31:42] Trying to send all finished work units
[21:31:42] + No unsent completed units remaining.
[21:31:42] - Autosend completed
[21:49:55] Completed 85000 out of 250000 steps (34%)
[22:23:26] Completed 87500 out of 250000 steps (35%)
[22:56:49] Completed 90000 out of 250000 steps (36%)
[23:29:45] Completed 92500 out of 250000 steps (37%)
[00:00:51] Completed 95000 out of 250000 steps (38%)
[00:33:53] Completed 97500 out of 250000 steps (39%)
[01:06:50] Completed 100000 out of 250000 steps (40%)
[01:39:50] Completed 102500 out of 250000 steps (41%)
[02:11:59] Completed 105000 out of 250000 steps (42%)
[02:44:29] Completed 107500 out of 250000 steps (43%)
[03:15:24] Completed 110000 out of 250000 steps (44%)
[03:31:42] - Autosending finished units... [April 19 03:31:42 UTC]
[03:31:42] Trying to send all finished work units
[03:31:42] + No unsent completed units remaining.
[03:31:42] - Autosend completed
[03:47:48] Completed 112500 out of 250000 steps (45%)
[04:19:52] Completed 115000 out of 250000 steps (46%)
[04:52:18] Completed 117500 out of 250000 steps (47%)
[05:24:38] Completed 120000 out of 250000 steps (48%)
[05:56:43] Completed 122500 out of 250000 steps (49%)
[06:28:55] Completed 125000 out of 250000 steps (50%)
[07:02:08] Completed 127500 out of 250000 steps (51%)
[07:35:22] Completed 130000 out of 250000 steps (52%)
[08:05:57] Completed 132500 out of 250000 steps (53%)
[08:38:32] Completed 135000 out of 250000 steps (54%)
[09:11:30] Completed 137500 out of 250000 steps (55%)
[09:31:42] - Autosending finished units... [April 19 09:31:42 UTC]
[09:31:42] Trying to send all finished work units
[09:31:42] + No unsent completed units remaining.
[09:31:42] - Autosend completed
[09:43:29] Completed 140000 out of 250000 steps (56%)
[10:15:39] Completed 142500 out of 250000 steps (57%)
[10:48:04] Completed 145000 out of 250000 steps (58%)
[11:19:38] Completed 147500 out of 250000 steps (59%)
[11:52:16] Completed 150000 out of 250000 steps (60%)

http://img212.imageshack.us/img212/4356/22995954.png (http://img212.imageshack.us/my.php?image=22995954.png)

Jolly-Swagman

04-19-09, 08:38 AM

You may need more Ram as some smp clients will need to use quite a bit of Ram and with only 1001mb for total that OS and Client , this may be an issue.
Also have had better Running on Ubuntu 8.04 64bit LTS that did on 8.10

Adak

04-19-09, 08:46 AM

Edward2

04-19-09, 09:00 AM

JS: I recently increased the memory on all of my VM's to 1200MB, because I was starting to see more and more swapfile usage.

I agree with both JS and Adak, version 8.04 seems to be the best for PPD right now.

ihrsetrdr

04-19-09, 09:11 AM

augie1111

04-19-09, 09:33 AM

You should dump 8.10 Ubuntu, because it has a well known fault in it, which causes SMP operations to be slowed by about 15%.

How this will manifest itself on different SMP WU's, is anybody's guess.

The version you want is "Hardy Heron", 8.04.

Someone has not been reading my sticky for Linux Ubuntu and SMP install guide. :D

Augie, say it ain't so: team 13790! :p

I have read it Adak and for some reason 8.04 LTS errors out when loading on the X2 but I had no problems loading the same image on my main quad rig as a VM. On the X2, 8.04 kept throwing up disk read errors, saying something like dirty lens or scratched CD I believe, after trying several CD's burnt at the lowest speed using ISOBurn. Vista and W7 loaded just fine here along with 8.10 so I don't get it.:bang head

Well, I have other opticals but I sure don't feel like switching a burner out for an older CD-ROM.

As to the team number, I must have had one too many :beer: ;):D

ihrsetrdr

04-19-09, 10:44 AM

I have read it Adak and for some reason 8.04 LTS errors out when loading on the X2 but I had no problems loading the same image on my main quad rig as a VM. On the X2, 8.04 kept throwing up disk read errors, saying something like dirty lens or scratched CD I believe, after trying several CD's burnt at the lowest speed using ISOBurn. Vista and W7 loaded just fine here along with 8.10 so I don't get it.:bang head

Well, I have other opticals but I sure don't feel like switching a burner out for an older CD-ROM.

Yea, you just might have a bad optical drive; I get more-than-average optic drive failures as I live in a dust prone area. I bought an external dvd/cd-rw which I keep in a(dust-free) drawer, and only deploy when an OS needs installed.

As to the team number, I must have had one too many :beer: ;):D

I'll say that's a pretty good binge...almost 4yr.s. ;););)

...it's all good. :beer:

:soda:

augie1111

04-19-09, 11:39 AM

Yea, you just might have a bad optical drive; I get more-than-average optic drive failures as I live in a dust prone area. I bought an external dvd/cd-rw which I keep in a(dust-free) drawer, and only deploy when an OS needs installed.

I'll say that's a pretty good binge...almost 4yr.s. ;););)

...it's all good. :beer:

:soda:

Hmm, ya'll have convinced me now about 8.04 and the %15 gain in PPD which is nothing to sneeze at, not that I really needed convincing!

I was also thinking of OC'ing the X2 again using the ASUS OC utility(I have an A8N-E in there) to at least %10 which is easy for an OC'ing n00b, I've since forgotten all that I learnt so all it will take is installing a temporary XP so's I can copy that to the BIOS. Gotta love KVMs for the install!

I'll break out the Phillips screwdriver and make the change. This should all happen tomorrow as the current WU will be done by then.

BTW ihrsetrdr, I'll take the Pepsi tomorrow.;):D

augie1111

04-20-09, 02:55 PM

OK, seems like ImgBurn 2,4,2 had an issue with burn speed and as I saw there was now 2.4.4 I used this to burn the 8.04.2 LTS X64 at 4X and it loaded oh so cleanly!WOOT!!!

Also with this updated version, I didn't have to install the ia-32libs as they were already current and there were way fewer updates to grab too! The cores are not doing the Tennessee waltz anymore either as both are nearly pinned, it's more like a whirling dervish!:D

Time now to wait and see the difference as I have the same 2669 WU crunching ATM. Here's what the monitor shows and no swap being used either! I can also return my screwdriver to its case as the optical is working fine.;) :beer::beer:

http://img82.imageshack.us/img82/236/screenshotptj.th.png (http://img82.imageshack.us/my.php?image=screenshotptj.png)

EDIT: Oh cow patties! It's back to the same thing! Well, back to the drawing board.:(
EDIT2: OK, it must have been a PEBKAC, I deleted everything relating to 2669 and the 2677 WU is now running @ 22min./frame=36.7hrs. which seems reasonable and both cores are pinned.:)

Adak

04-20-09, 08:39 PM

That sounds a lot better than the cow patties I've run into --> Good Deal!

ihrsetrdr

04-20-09, 11:08 PM

augie1111

04-21-09, 11:41 AM

-just for reference: gnomebaker (https://help.ubuntu.com/community/GnomeBaker) does such a great job burning CD/DVD .ISOs that I just can't bring myself to burn anything in a Windows environment ever again.

Thanks for that man as I'm basically a *nix n00b. I'm glad I finally got a reason to learn a bit of *nix and it's getting easier all the time.:)

Anyways, the WU is at %54, the memory use has gone up from %53 to %73 and Swap has gone from 0 to 45MB. I'll assume this is normal behaviour. I'll be looking for another gig of memory now if the price is right. I have to follow the laws of 'Affordable Folding' or otherwise called wifey.;)

ihrsetrdr

04-21-09, 01:04 PM

Thanks for that man as I'm basically a *nix n00b. I'm glad I finally got a reason to learn a bit of *nix and it's getting easier all the time.:)

Actually it was the expansion of my folding farm that gave me the impetus to become involved with Linux(the "free-as-in-beer" factor) as I was running out of Windows licenses; later, I began to appreciate & embrace the "free-as-in-Freedom" aspect of using Linux. Even tho' I've purchased additional XP licenses for the GPU2 rigs, my preference for daily computational usage is oriented towards the Open Source (http://www.opensource.org/docs/definition.php) realm.

"*nix n00b" I consider myself to be an intermediate *nix n00b, with hopes of someday becoming a little more advanced *nix n00b. ;)