Posts by KSMarksPsych

1) Message boards : RALPH@home bug list : minirosetta v1.18 bug thread (Message 3983)
Posted 4 May 2008 by Profile KSMarksPsych
Post:
Validate error on Fedora 7 64 bit.

I also noticed that I\'m not getting fewer granted credits than claimed on Mini tasks on this host. This is in contrast to previous version where I always got more than claimed (by a pretty good margin too).

Validate error on Fedora 7 32 bit.

Granted credits are equal to or slightly higher than claimed.
2) Message boards : RALPH@home bug list : minirosetta 1.15 bug thread (Message 3965)
Posted 23 Apr 2008 by Profile KSMarksPsych
Post:
I\'ve got one running successfully on 32 bit Fedora 7. I\'ll report when it finishes.
3) Message boards : RALPH@home bug list : minirosetta 1.14 bug thread (Message 3957)
Posted 22 Apr 2008 by Profile KSMarksPsych
Post:
Don\'t think I saw this one reported...

<core_client_version>5.10.21</core_client_version>
<![CDATA[
<message>
process exited with code 1 (0x1, -255)
</message>
<stderr_txt>

ERROR: Unable to locate database file Rama_smooth_dyn.dat_ss_6.4
ERROR:: Exit from: src/core/io/database/open.cc line: 82
called boinc_finish

</stderr_txt>
]]>

http://ralph.bakerlab.org/workunit.php?wuid=831324
4) Message boards : RALPH@home bug list : minirosetta 1.13 bug thread (Message 3937)
Posted 21 Apr 2008 by Profile KSMarksPsych
Post:
Result
Host

<core_client_version>5.10.21</core_client_version>
<![CDATA[
<stderr_txt>
WARNING: Override of option -out:nstruct sets a different value
can not open 1-mer fragment library file: none
# cpu_run_time_pref: 7200
======================================================
DONE :: 1 starting structures 302.263 cpu seconds
This process generated 0 decoys from 0 attempts
======================================================

BOINC :: Watchdog shutting down...
BOINC :: BOINC support services shutting down...
called boinc_finish

</stderr_txt>
]]>


I\'ll have to grep my logs to see what happened.
5) Message boards : RALPH@home bug list : Bug reports for 5.96 (Message 3934)
Posted 20 Apr 2008 by Profile KSMarksPsych
Post:
Result
Host

<core_client_version>5.10.21</core_client_version>
<![CDATA[
<message>
process exited with code 1 (0x1, -255)
</message>
<stderr_txt>
Graphics are disabled due to configuration...
# cpu_run_time_pref: 7200
ERROR:: Unable to obtain total_residue & sequence.
start pdb file must be provided.
ERROR:: Exit from: input_pdb.cc line: 2970

</stderr_txt>
]]>



2008-04-21 06:10:29 [ralph@home] Starting task BAK1k9k_Abrlx_3517_50_0 using rosetta_beta version 596
2008-04-21 06:10:31 [ralph@home] Reason: Unrecoverable error for result BAK1k9k_Abrlx_3517_50_0 (process exited with code 1 (0x1, -255))
2008-04-21 06:10:31 [ralph@home] Computation for task BAK1k9k_Abrlx_3517_50_0 finished
2008-04-21 06:10:31 [ralph@home] Output file BAK1k9k_Abrlx_3517_50_0_0 for task BAK1k9k_Abrlx_3517_50_0 absent
6) Message boards : RALPH@home bug list : minirosetta 1.13 bug thread (Message 3929)
Posted 19 Apr 2008 by Profile KSMarksPsych
Post:
Working fine of my Fedora 7 x86 box. I\'m about to add it to the x64 box.
7) Message boards : RALPH@home bug list : minirosetta 1.12 bug thread (Message 3912)
Posted 16 Apr 2008 by Profile KSMarksPsych
Post:
Getting the same error as before so I assume the linux problem isn\'t fixed :|



Ditto.

2008-04-16 20:24:33 [ralph@home] Starting 1lis__BOINC_ABINITIO_IGNORE_THE_REST-S25-9-S3-11--1lis_-_3476_1_0
2008-04-16 20:24:33 [ralph@home] Starting task 1lis__BOINC_ABINITIO_IGNORE_THE_REST-S25-9-S3-11--1lis_-_3476_1_0 using minirosetta version 112
2008-04-16 20:24:35 [ralph@home] Computation for task 1lis__BOINC_ABINITIO_IGNORE_THE_REST-S25-9-S3-11--1lis_-_3476_1_0 finished
2008-04-16 20:24:35 [ralph@home] Output file 1lis__BOINC_ABINITIO_IGNORE_THE_REST-S25-9-S3-11--1lis_-_3476_1_0_0 for task
1lis__BOINC_ABINITIO_IGNORE_THE_REST-S25-9-S3-11--1lis_-_3476_1_0 absent

Fedora 7 x86, BOINC 5.10.21
8) Message boards : RALPH@home bug list : minirosetta 1.12 bug thread (Message 3904)
Posted 15 Apr 2008 by Profile KSMarksPsych
Post:
I just allowed work fetch and got 1.11 on Linux x86
9) Message boards : RALPH@home bug list : Bug Reports for Rosetta Mini Versions 1.+ (Message 3848)
Posted 8 Apr 2008 by Profile KSMarksPsych
Post:
Had 20 work units fail with same error



<core_client_version>5.10.45</core_client_version>
<![CDATA[
<message>
process exited with code 1 (0x1, -255)
</message>
<stderr_txt>
End-of-central-directory signature not found. Either this file is not
a zipfile, or it constitutes one disk of a multi-part archive. In the
latter case the central directory and zipfile comment will be found on
the last disk(s) of this archive.
unzip: cannot find zipfile directory in one of minirosetta_database_rev20940.zip or
minirosetta_database_rev20940.zip.zip, and cannot find minirosetta_database_rev20940.zip.ZIP, period.

ERROR: Unable to open file: minirosetta_database/chemical/residue_type_sets/fa_standard/residue_types.txt

ERROR:: Exit from: src/core/chemical/ResidueTypeSet.cc line: 85
called boinc_finish

First WU to fail
Last WU of 20 to fail

All failed on Host 13121, AMD Opteron 285, Linux Fedora Core 3.
\\

Same here. Host ID 11671, Intel Core Duo, Fedora 7, BOINC 5.10.21
10) Message boards : RALPH@home bug list : Bug Reports for Rosetta Mini Versions 1.+ (Message 3834)
Posted 19 Mar 2008 by Profile KSMarksPsych
Post:
BOINC 5.10.21, Fedora 7, RosettaMini 1.09, Intel Core Duo

I downloaded a bunch of Orbit work. It\'s currently running in EDF (high priority). I noticed that the CPU time wasn\'t ticking up once per second as I would have expected. A quick look at top shows that RosettaMini was getting a third of the processing power. Starting and stopping the daemon got the Rosetta app back under control.

Screenshot for your viewing pleasured...

11) Message boards : RALPH@home bug list : Rosetta mini 1.07 (Message 3768)
Posted 20 Feb 2008 by Profile KSMarksPsych
Post:
I had noticed a few days ago that an Einstein and a Rosetta Mini task were running together. Both were listed as running, but only the Rosetta task was accruing CPU time. Top confirmed that the E@H task wasn\'t getting any CPU time. Stopping/starting the daemon got things running properly again and I didn\'t think anything else of it.

I saw the same thing again this evening. I took some screen shots before and after restarting the daemon.



Happened again.

It\'s only happening with Einstein. Other projects are running fine with Rosetta Mini.


I am in no position (and totally unqualified) to check this out, but if this were to happen on my Mac my first question would be: What is the behavior of the kernel_task process? (See <a href=\"http://ralph.bakerlab.org//forum_thread.php?id=326&nowrap=true#3338\">this message</a>.)


Can you put that in English for the technically challenged among us (/me points to self)?
12) Message boards : RALPH@home bug list : Rosetta mini 1.07 (Message 3767)
Posted 20 Feb 2008 by Profile KSMarksPsych
Post:
I had noticed a few days ago that an Einstein and a Rosetta Mini task were running together. Both were listed as running, but only the Rosetta task was accruing CPU time. Top confirmed that the E@H task wasn\'t getting any CPU time. Stopping/starting the daemon got things running properly again and I didn\'t think anything else of it.

I saw the same thing again this evening. I took some screen shots before and after restarting the daemon.



Happened again.

It\'s only happening with Einstein. Other projects are running fine with Rosetta Mini.


Hello Kathryn,
I too have had an Einstein say it was running when it wasn\'t. Restarting Boinc Manager got all things in order. I am running Fedora Core 3 on the machine it stopped on. Ralph, Rosetta and my other projects were all OK. I run the Power App 4.32, that may be the problem, did not see it before.

Waiting to see if the new 1.08 Ralph WU\'s give a better credit per WU on Windows than 1.07.
I even aborted one \'mini\' on Rosetta due to such poor credit issued, but I have let them run in Ralph to help find the problem.


Hmmm... Well, I\'ll pop over to E@H and report it there too I guess. I had no problems with E@H until I started up Ralph. I\'ve set Ralph to NNT for the moment and we\'ll see if I run into the problem again. Then I\'ll reenable work fetch for Ralph and see if I can reproduce the stalling.


(One other thing Kathryn, how did you get the screen shot into this forum? I tried for 2 hours off an Windows machine into the Rosetta forum and gave up?)


Upload it to someplace like imageshack or photobucket and put the resulting url between bbcode image tags. Photobucket will actually generate the bbcode for you so all you have to do is copy/paste.
13) Message boards : RALPH@home bug list : Rosetta mini 1.07 (Message 3760)
Posted 19 Feb 2008 by Profile KSMarksPsych
Post:
I had noticed a few days ago that an Einstein and a Rosetta Mini task were running together. Both were listed as running, but only the Rosetta task was accruing CPU time. Top confirmed that the E@H task wasn\'t getting any CPU time. Stopping/starting the daemon got things running properly again and I didn\'t think anything else of it.

I saw the same thing again this evening. I took some screen shots before and after restarting the daemon.



Happened again.

It\'s only happening with Einstein. Other projects are running fine with Rosetta Mini.
14) Message boards : Current tests : Help us debug minirosetta. (Message 3759)
Posted 19 Feb 2008 by Profile KSMarksPsych
Post:
Thinks KSMarksPsych should be more generous with the credits granted. Am on W.XP and suffering!



Install Fedora?

:-)

Don\'t blame me. I just report what I see.
15) Message boards : Current tests : Help us debug minirosetta. (Message 3755)
Posted 18 Feb 2008 by Profile KSMarksPsych
Post:
I\'m sometimes getting double of what I\'m claiming.

These are my last three Mini tasks (Linux)
CPU time (sec)  	claimed credit  	granted credit
 	13,005.13  	31.92  			50.88
 	13,564.10  	33.29  			50.73
	12,407.80  	30.77  			50.87



In contrast, it seems like I get exactly what I claim on Beta tasks.
16) Message boards : RALPH@home bug list : Rosetta mini 1.07 (Message 3747)
Posted 17 Feb 2008 by Profile KSMarksPsych
Post:
Couple things to report.

I\'ve seen some \"Exited with 0 status but no finished file\" messages. My network has been flaky lately, so that could account for it. Work seems to pick up and finish normally.

I had noticed a few days ago that an Einstein and a Rosetta Mini task were running together. Both were listed as running, but only the Rosetta task was accruing CPU time. Top confirmed that the E@H task wasn\'t getting any CPU time. Stopping/starting the daemon got things running properly again and I didn\'t think anything else of it.

I saw the same thing again this evening. I took some screen shots before and after restarting the daemon.








It\'s this host which runs Fedora 7. Latest updates were installed Friday evening. BOINC 5.10.21 is installed via rpm and it runs as a system daemon. It\'s this result.
17) Message boards : RALPH@home bug list : Bug Reports for Rosetta Mini Versions 1.+ (Message 3693)
Posted 7 Feb 2008 by Profile KSMarksPsych
Post:
> Version \"mini 1.06\" seemed to have completed OK but received a \"Validation Error\" and then said invalid with no credit.
This WU



See here. Looks like we found a bug :-)
18) Message boards : RALPH@home bug list : Rosetta Mini 1.06 (Message 3688)
Posted 6 Feb 2008 by Profile KSMarksPsych
Post:
I just had an invalid on Linux

mini_abinitio-1ughI-test_james_3206_2_0

http://ralph.bakerlab.org/result.php?resultid=743813


I believe it was interrupted while I was running some tests on a self compiled client.


score13_hb_envtest62_A_1a68__3157_1

http://score13_hb_envtest62_A_1a68__3157_1

run with the same app was valid
19) Message boards : Current tests : test WUs (Message 3594)
Posted 4 Jan 2008 by Profile KSMarksPsych
Post:
Y\'all know how to twist a gal\'s arm. :-)

I just attached my Fedora 7 host.

It now has one in progress, but it\'s only been running for a few minutes.

It would be nice if work was marked for a specific OS. It would help the testing out immensely. I\'m not sure if there is a way to do it outside HR though. And I don\'t know how HR would work with a quorum of 1.


If they had to go to quorum of 2, it would still benefit the project to be able to direct to Linux.

I put another Linux box on this morning and get nada.



Big problem with quorum of two is that people can set their own run time. So a 2 hour unit won\'t validate against a 4 hour one.
20) Message boards : Current tests : test WUs (Message 3589)
Posted 3 Jan 2008 by Profile KSMarksPsych
Post:
Y\'all know how to twist a gal\'s arm. :-)

I just attached my Fedora 7 host.

It now has one in progress, but it\'s only been running for a few minutes.

It would be nice if work was marked for a specific OS. It would help the testing out immensely. I\'m not sure if there is a way to do it outside HR though. And I don\'t know how HR would work with a quorum of 1.


Next 20



©2019 University of Washington
http://www.bakerlab.org