bug report for version 5.81

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Ingemar
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Message 3426 - Posted: 27 Oct 2007, 2:31:44 UTC

Please report bugs for version 5.81 here.
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Message 3430 - Posted: 30 Oct 2007, 5:33:24 UTC

The first BUG is that there is no work units.
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Message 3431 - Posted: 30 Oct 2007, 6:03:14 UTC - in response to Message 3430.  

The first BUG is that there is no work units.

Snort!
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Message 3432 - Posted: 31 Oct 2007, 1:04:47 UTC
Last modified: 31 Oct 2007, 1:06:26 UTC

Result 651171 blew up after about 20 minutes:

\"<core_client_version>5.8.16</core_client_version>
<![CDATA[
<message>
- exit code -1073741819 (0xc0000005)
</message>
<stderr_txt>
# cpu_run_time_pref: 7200
# random seed: 1841201


Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x0089AB5A read attempt to address 0x10DAC000

Engaging BOINC Windows Runtime Debugger...\"

This is followed by a lot of debug information.

--Mike
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Message 3433 - Posted: 31 Oct 2007, 1:13:22 UTC

Result 651189 also blew up the same way.

--Mike
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Message 3434 - Posted: 31 Oct 2007, 4:47:53 UTC

Same here
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Message 3435 - Posted: 31 Oct 2007, 9:42:48 UTC
Last modified: 31 Oct 2007, 10:09:53 UTC

Out of four 5.81 results crunched by Win host 7828 so far, 1 was OK (88 minutes) and three errored out after 5-30 minutes (projected to run 120 minutes long).

OTOH slower Linux host 4237, projected to run 240 minutes long, is after 112 minutes currently at 46% and still running (lets see later).

Peter

PS: Possibly one important point noticed: the good result was named \"**__TESTJUMP_LOW_CYCLE_ABRELAX...\", whereas all failed ones were \"**__BOINC_SYMM_FOLD_AND_DOCK_RELAX...\".
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Message 3436 - Posted: 31 Oct 2007, 17:40:13 UTC

I have had three errors in a row. All failed with the same error messages. And all wingmen also errored out on these WUs too.

http://ralph.bakerlab.org/result.php?resultid=651716
windows XP, failed after 3733 seconds.

http://ralph.bakerlab.org/result.php?resultid=651708
windows XP, failed after 1133 seconds.

http://ralph.bakerlab.org/result.php?resultid=651663
windows XP, failed after 589 seconds.



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Message 3437 - Posted: 31 Oct 2007, 23:33:31 UTC - in response to Message 3435.  

Out of four 5.81 results crunched by Win host 7828 so far, 1 was OK (88 minutes) and three errored out after 5-30 minutes (projected to run 120 minutes long).

Two others failed too. Also \"**__BOINC_SYMM_FOLD_AND_DOCK_RELAX...\".

OTOH slower Linux host 4237, projected to run 240 minutes long, is after 112 minutes currently at 46% and still running (lets see later).

Finished correctly. And it was also \"**__TESTJUMP_LOW_CYCLE_ABRELAX...\".

Peter
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Message 3438 - Posted: 2 Nov 2007, 8:12:35 UTC
Last modified: 2 Nov 2007, 8:26:48 UTC

File checksum errors on 2 files this morning. See error messages below:-

02/11/2007 07:47:58|ralph@home|Sending scheduler request: To fetch work
02/11/2007 07:47:58|ralph@home|Requesting 148215 seconds of new work
02/11/2007 07:48:03|ralph@home|Scheduler RPC succeeded [server version 509]
02/11/2007 07:48:03|ralph@home|Deferring communication for 4 min 2 sec
02/11/2007 07:48:03|ralph@home|Reason: requested by project
02/11/2007 07:48:05|ralph@home|[file_xfer] Started download of file native_2nzc_.fasta.gz
02/11/2007 07:48:05|ralph@home|[file_xfer] Started download of file native_2nzc_.psipred_ss2.gz
02/11/2007 07:48:06|ralph@home|Incomplete read of 912.000000 < 5KB for native_2nzc_.psipred_ss2.gz - truncating
02/11/2007 07:48:06|ralph@home|[file_xfer] Finished download of file native_2nzc_.psipred_ss2.gz
02/11/2007 07:48:06|ralph@home|[file_xfer] Throughput 2432 bytes/sec
02/11/2007 07:48:06|ralph@home|[file_xfer] Started download of file boinc_native_aa2nzc_03_05.200_v1_3.gz
02/11/2007 07:48:06|ralph@home|[error] Checksum or signature error for native_2nzc_.psipred_ss2.gz
02/11/2007 07:48:07|ralph@home|Incomplete read of 118.000000 < 5KB for native_2nzc_.fasta.gz - truncating
02/11/2007 07:48:07|ralph@home|[file_xfer] Finished download of file native_2nzc_.fasta.gz
02/11/2007 07:48:07|ralph@home|[file_xfer] Throughput 83 bytes/sec
02/11/2007 07:48:07|ralph@home|[file_xfer] Started download of file boinc_native_aa2nzc_09_05.200_v1_3.gz
02/11/2007 07:48:07|ralph@home|[error] Checksum or signature error for native_2nzc_.fasta.gz
02/11/2007 07:48:15|ralph@home|[file_xfer] Finished download of file boinc_native_aa2nzc_09_05.200_v1_3.gz
02/11/2007 07:48:15|ralph@home|[file_xfer] Throughput 25980 bytes/sec
02/11/2007 07:48:15|ralph@home|[file_xfer] Started download of file native_2nzc.pdb.gz
02/11/2007 07:48:15|ralph@home|[error] Checksum or signature error for boinc_native_aa2nzc_09_05.200_v1_3.gz
02/11/2007 07:48:18|ralph@home|[file_xfer] Finished download of file native_2nzc.pdb.gz
02/11/2007 07:48:18|ralph@home|[file_xfer] Throughput 16432 bytes/sec
02/11/2007 07:48:18|ralph@home|[file_xfer] Started download of file symm_fold_and_dock_description.txt
02/11/2007 07:48:18|ralph@home|[error] Checksum or signature error for native_2nzc.pdb.gz
02/11/2007 07:48:19|ralph@home|[file_xfer] Finished download of file symm_fold_and_dock_description.txt
02/11/2007 07:48:19|ralph@home|[file_xfer] Throughput 138 bytes/sec
02/11/2007 07:48:24|ralph@home|[file_xfer] Finished download of file boinc_native_aa2nzc_03_05.200_v1_3.gz
02/11/2007 07:48:24|ralph@home|[file_xfer] Throughput 43658 bytes/sec
02/11/2007 07:48:24|ralph@home|[error] Checksum or signature error for boinc_native_aa2nzc_03_05.200_v1_3.gz
02/11/2007 07:52:10|ralph@home|Sending scheduler request: To report completed tasks
02/11/2007 07:52:10|ralph@home|Reporting 2 tasks
02/11/2007 07:52:14|ralph@home|Scheduler RPC succeeded [server version 509]
02/11/2007 07:52:14|ralph@home|Deferring communication for 4 min 2 sec
02/11/2007 07:52:14|ralph@home|Reason: requested by project

Edit:- And again:-

02/11/2007 08:17:10|ralph@home|Sending scheduler request: To fetch work
02/11/2007 08:17:10|ralph@home|Requesting 148246 seconds of new work
02/11/2007 08:17:15|ralph@home|Scheduler RPC succeeded [server version 509]
02/11/2007 08:17:15|ralph@home|Deferring communication for 4 min 2 sec
02/11/2007 08:17:15|ralph@home|Reason: requested by project
02/11/2007 08:17:17|ralph@home|[file_xfer] Started download of file native_2nzc_.fasta.gz
02/11/2007 08:17:17|ralph@home|[file_xfer] Started download of file native_2nzc_.psipred_ss2.gz
02/11/2007 08:17:19|ralph@home|Incomplete read of 118.000000 < 5KB for native_2nzc_.fasta.gz - truncating
02/11/2007 08:17:19|ralph@home|Incomplete read of 912.000000 < 5KB for native_2nzc_.psipred_ss2.gz - truncating
02/11/2007 08:17:19|ralph@home|[file_xfer] Finished download of file native_2nzc_.fasta.gz
02/11/2007 08:17:19|ralph@home|[file_xfer] Throughput 306 bytes/sec
02/11/2007 08:17:19|ralph@home|[file_xfer] Finished download of file native_2nzc_.psipred_ss2.gz
02/11/2007 08:17:19|ralph@home|[file_xfer] Throughput 2451 bytes/sec
02/11/2007 08:17:19|ralph@home|[file_xfer] Started download of file boinc_native_aa2nzc_03_05.200_v1_3.gz
02/11/2007 08:17:19|ralph@home|[file_xfer] Started download of file boinc_native_aa2nzc_09_05.200_v1_3.gz
02/11/2007 08:17:19|ralph@home|[error] Checksum or signature error for native_2nzc_.fasta.gz
02/11/2007 08:17:19|ralph@home|[error] Checksum or signature error for native_2nzc_.psipred_ss2.gz
02/11/2007 08:17:27|ralph@home|[file_xfer] Finished download of file boinc_native_aa2nzc_09_05.200_v1_3.gz
02/11/2007 08:17:27|ralph@home|[file_xfer] Throughput 27115 bytes/sec
02/11/2007 08:17:27|ralph@home|[file_xfer] Started download of file native_2nzc.pdb.gz
02/11/2007 08:17:27|ralph@home|[error] Checksum or signature error for boinc_native_aa2nzc_09_05.200_v1_3.gz
02/11/2007 08:17:30|ralph@home|[file_xfer] Finished download of file native_2nzc.pdb.gz
02/11/2007 08:17:30|ralph@home|[file_xfer] Throughput 16118 bytes/sec
02/11/2007 08:17:30|ralph@home|[file_xfer] Started download of file symm_fold_and_dock_description.txt
02/11/2007 08:17:30|ralph@home|[error] Checksum or signature error for native_2nzc.pdb.gz
02/11/2007 08:17:31|ralph@home|[file_xfer] Finished download of file symm_fold_and_dock_description.txt
02/11/2007 08:17:31|ralph@home|[file_xfer] Throughput 132 bytes/sec
02/11/2007 08:17:36|ralph@home|[file_xfer] Finished download of file boinc_native_aa2nzc_03_05.200_v1_3.gz
02/11/2007 08:17:36|ralph@home|[file_xfer] Throughput 44061 bytes/sec
02/11/2007 08:17:36|ralph@home|[error] Checksum or signature error for boinc_native_aa2nzc_03_05.200_v1_3.gz
02/11/2007 08:21:21|ralph@home|Sending scheduler request: To report completed tasks
02/11/2007 08:21:21|ralph@home|Reporting 1 tasks
02/11/2007 08:21:26|ralph@home|Scheduler RPC succeeded [server version 509]
02/11/2007 08:21:26|ralph@home|Deferring communication for 4 min 2 sec
02/11/2007 08:21:26|ralph@home|Reason: requested by project


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Message 3439 - Posted: 2 Nov 2007, 12:01:31 UTC

Same error as a few others have had
This WU

<core_client_version>5.8.15</core_client_version>
<![CDATA[
<message>
- exit code -1073741819 (0xc0000005)
</message>
<stderr_txt>
# cpu_run_time_pref: 21600
# random seed: 1841151


Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x0089ABAA read attempt to address 0x0D934000

Engaging BOINC Windows Runtime Debugger...
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Message 3440 - Posted: 3 Nov 2007, 6:58:26 UTC

Got a sigseg violation on this wu.

<![CDATA[
<message>
process exited with code 193 (0xc1, -63)
</message>
<stderr_txt>
Graphics are disabled due to configuration...
# cpu_run_time_pref: 3600
# random seed: 1841134
SIGSEGV: segmentation violation
Stack trace (25 frames):
[0x8d89127]
[0x8d83f1c]
[0xb7f4e420]
[0x851f0f4]
[0x8bf9485]
[0x804c78c]
[0x862453f]
[0x8779238]
[0x8779566]
[0x877d517]
[0x878e8b7]
[0x8792964]
[0x86293f5]
[0x8793b19]
[0x804e31a]
[0x8cdccd8]
[0x89af996]
[0x8944cdb]
[0x8945a19]
[0x899441e]
[0x85f609a]
[0x8735026]
[0x8735146]
[0x8ded474]
[0x8048111]

Exiting...

</stderr_txt>
]]>

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Message 3441 - Posted: 3 Nov 2007, 8:30:15 UTC
Last modified: 3 Nov 2007, 8:30:31 UTC

Not sure if this one is a problem or not. It seems to have initialized twice, then had some issues:

<core_client_version>5.8.16</core_client_version>
<![CDATA[
<stderr_txt>
# cpu_run_time_pref: 7200
# random seed: 1840320
# cpu_run_time_pref: 7200
# random seed: 1840320
WARNING! Not sure non-ideal rotamers are compatible with symmetry yet...
WARNING! Not sure non-ideal rotamers are compatible with symmetry yet...
WARNING! Not sure non-ideal rotamers are compatible with symmetry yet...
======================================================
DONE :: 1 starting structures 4520.34 cpu seconds
This process generated 1 decoys from 1 attempts
======================================================


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

==Mike
Don't believe everything you think.
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Message 3442 - Posted: 4 Nov 2007, 8:10:01 UTC

I am unable to join a Team, seems the error is Link has timed out! I have rushed the effort as much as possible on my part but still getting an error to join any team with: \"Link has timed out. Please click Back, refresh the page, and try again.\" I have done what the message says about 5 times now with no change.

Can you help? Trying to Join \'AMD Users\'
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Message 3443 - Posted: 4 Nov 2007, 17:12:00 UTC

This is neither a bug report at all, nor a complaint, only an observation. I\'ve just noticed, that as the Rosetta Beta 5.80 task (..._TREEJUMP_ABRELAX_TOR_...) was requiring up to 20 MB virtual memory and was capable of using 170 MB RAM, my current Rosetta Beta 5.81 task (..._BOINC_SYMM_FOLD_AND_DOCK_RELAX_...) currently needs 500 MB memory and can use up to 350 MB RAM. Nice big numbers...

Peter
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Message 3445 - Posted: 7 Nov 2007, 1:51:13 UTC

Is LINIX the only thing being tested?
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Message 3446 - Posted: 7 Nov 2007, 8:58:57 UTC - in response to Message 3445.  

Is LINIX the only thing being tested?

What\'s LINIX?
(If you mean Linux, then no, 5.81 is being run on both Windows and Linux (I can confirm with mine ones) and Mac machines.)

Peter
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Message 3456 - Posted: 9 Nov 2007, 1:46:57 UTC

The team joining error is fixed, Thank You!
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Message 3461 - Posted: 14 Nov 2007, 15:30:17 UTC

I have lost several of the 1emn_ type units like this one:

resid 660350

on my win xp x64 machine, all the same:
\"Reason: Access Violation (0xc0000005) at address 0x006C1EDD write attempt to address 0x00000001\"

Seems like it happens in the initialization phase, using only a couple of cpu secs.?
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Message 3462 - Posted: 14 Nov 2007, 15:55:39 UTC

Failed after 2 seconds. Both wing men wailed as well.

http://ralph.bakerlab.org/result.php?resultid=660508

I would use BBCode to make the link clickable, but doing so prevents it from getting past the SPAM filter. The new spam filter functionality needs to be revised, or removed.
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