Bug reports for 5.96

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Rhiju
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Message 3835 - Posted: 22 Mar 2008, 0:18:29 UTC
Last modified: 22 Mar 2008, 0:18:46 UTC

A small update, mainly tests of a new mode for modeling RNA structures with experimental constraints. Let us know if you see anything fishy!
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caesar1987

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Message 3840 - Posted: 26 Mar 2008, 16:58:25 UTC

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Path7

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Message 3841 - Posted: 26 Mar 2008, 20:28:03 UTC - in response to Message 3840.  

this was in rosetta.....


http://caesar1987.px2.biz/subfolder/mix/wtf.jpg


Hello caesar1987,

Wondering whether this is an exception to the rule or a common problem.
I\'ve only received non-symmetric 5.96\'s at R@h so far.

Have a nice day,
Path7.
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AdeB
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Message 3842 - Posted: 31 Mar 2008, 19:08:20 UTC

What happened with this workunit?
Stderr out looks normal to me.
Valid state: Workunit error - check skipped
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Message 3851 - Posted: 8 Apr 2008, 14:45:26 UTC
Last modified: 8 Apr 2008, 14:49:59 UTC

wu CAPRI_15_t036_1gh10_1_IGNORE_THE_RESTt036_1_t035.template.pdb_3453_7_1failed twice with same error for both crunchers

stderr out

<core_client_version>5.10.34</core_client_version>
<![CDATA[
<stderr_txt>
Rosetta@home Macintosh Stack Size checker.
Original size: 0.
Maximum size: 8388608.
RLIM_INFINITY 0
# cpu_run_time_pref: 7200
# random seed: 1418096
======================================================
DONE :: 1 starting structures 26657.5 cpu seconds
This process generated 1 decoys from 1 attempts
0 starting pdbs were skipped
======================================================


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

</stderr_txt>
<message>
<file_xfer_error>
<file_name>CAPRI_15_t036_1gh10_1_IGNORE_THE_RESTt036_1_t035.template.pdb_3453_7_1_0</file_name>
<error_code>-161</error_code>
</file_xfer_error>

</message>
]]>


edit/ I\'m working on another one of these right now which failed for the previous cruncher with the same error. Any need to attempt this one or should I abort it?

Snags
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Message 3854 - Posted: 8 Apr 2008, 16:23:29 UTC

Task ID 883408
Name 1uix__BOINC_SYMM_FOLD_AND_DOCK_RELAX-1uix_-native__3455_2_1
Workunit 778005
Created 8 Apr 2008 14:53:34 UTC
Sent 8 Apr 2008 15:00:55 UTC
Received 8 Apr 2008 16:18:11 UTC
Server state Over
Outcome Client error
Client state Compute error
Exit status -1073741819 (0xffffffffc0000005)
Computer ID 12421
Report deadline 12 Apr 2008 15:00:55 UTC
CPU time 742.25
stderr out <core_client_version>5.10.45</core_client_version>
<![CDATA[
<message>
- exit code -1073741819 (0xc0000005)
</message>
<stderr_txt>
# cpu_run_time_pref: 3600
# random seed: 1417941


Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x008BBABB read attempt to address 0x0D7D4000

Engaging BOINC Windows Runtime Debugger...



********************


Do you require the Runtime debugger?? It is huge!
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Message 3856 - Posted: 8 Apr 2008, 18:51:02 UTC
Last modified: 8 Apr 2008, 18:51:56 UTC

Win XP, output file absent, this WU

Computation for task BAK1b0o_loop_model_auto1_3456_9_1 finished
Output file BAK1b0o_loop_model_auto1_3456_9_1_0 for task BAK1b0o_loop_model_auto1_3456_9_1 absent
Reason: Unrecoverable error for result BAK1b0o_loop_model_auto1_3456_9_1 (<file_xfer_error> <file_name>BAK1b0o_loop_model_auto1_3456_9_1_0</file_name> <error_code>-161</error_code></file_xfer_error>)


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Message 3857 - Posted: 8 Apr 2008, 19:34:25 UTC

Is it right to post here simple compute error? I hope this help...
(sorry for my english)

http://ralph.bakerlab.org/result.php?resultid=884441

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<stderr_txt>
# cpu_run_time_pref: 3600
# random seed: 1417895
======================================================
DONE :: 1 starting structures 3712.81 cpu seconds
This process generated 1 decoys from 1 attempts
0 starting pdbs were skipped
======================================================


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

</stderr_txt>
<message>
<file_xfer_error>
<file_name>BAK1b0o_loop_model_auto1_3456_38_1_0</file_name>
<error_code>-161</error_code>
</file_xfer_error>

</message>
]]>
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Odysseus

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Message 3861 - Posted: 9 Apr 2008, 6:00:55 UTC

One of the two tasks on my G5 Mac just got an error after finishing; the other one had just started:

Tue  8 Apr 23:02:29 2008|ralph@home|Computation for task BAK1b0o_loop_model_auto1_3456_8_1 finished
Tue  8 Apr 23:02:29 2008|ralph@home|Starting task BAK1b0o_loop_model_auto1_3456_39_1 using rosetta_beta version 596
Tue  8 Apr 23:02:30 2008|ralph@home|Unrecoverable error for result BAK1b0o_loop_model_auto1_3456_8_1 (<file_xfer_error>  <file_name>BAK1b0o_loop_model_auto1_3456_8_1_0</file_name>  <error_code>-161</error_code></file_xfer_error>)


The result hasn’t been reported yet.
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Jipsu

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Message 3862 - Posted: 9 Apr 2008, 8:17:21 UTC
Last modified: 9 Apr 2008, 8:23:52 UTC

WU failed with error code

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
# cpu_run_time_pref: ERROR:: Exit from: 3600.\\jumping_pairings.cc
line: 1287

</stderr_txt>
]]>

Windows XP SP2

Also got this same error with another XP SP2 computer WU
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Jipsu

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Message 3863 - Posted: 9 Apr 2008, 8:20:56 UTC

And second one, this gives Validate error

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<stderr_txt>
# cpu_run_time_pref: 3600
# random seed: 1417853
# cpu_run_time_pref: 3600
======================================================
DONE :: 1 starting structures 3083.61 cpu seconds
This process generated 3 decoys from 3 attempts
0 starting pdbs were skipped
======================================================


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

</stderr_txt>
<message>
<file_xfer_error>
<file_name>BAK1b0o_loop_model_auto2_3457_40_1_0</file_name>
<error_code>-161</error_code>
</file_xfer_error>

</message>
]]>
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Snagletooth

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Message 3871 - Posted: 9 Apr 2008, 17:43:53 UTC

Another 161 error for CAPRI_15_t036_1gh10_1_IGNORE_THE_RESTt036_1_t035.template.pdb_3453_3



stderr out

<core_client_version>5.10.34</core_client_version>
<![CDATA[
<stderr_txt>
Rosetta@home Macintosh Stack Size checker.
Original size: 0.
Maximum size: 8388608.
RLIM_INFINITY 0
# cpu_run_time_pref: 7200
# random seed: 1418100
# cpu_run_time_pref: 14400
======================================================
DONE :: 1 starting structures 29526.5 cpu seconds
This process generated 1 decoys from 1 attempts
0 starting pdbs were skipped
======================================================


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

</stderr_txt>
<message>
<file_xfer_error>
<file_name>CAPRI_15_t036_1gh10_1_IGNORE_THE_RESTt036_1_t035.template.pdb_3453_3_1_0</file_name>
<error_code>-161</error_code>
</file_xfer_error>

</message>
]]>

You should also know that it ran straight through which I take to mean there is no checkpoint. Is this right? Eight hours is a very long time to go without checkpointing.
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Odysseus

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Message 3873 - Posted: 10 Apr 2008, 2:20:10 UTC - in response to Message 3861.  

One of the two tasks on my G5 Mac just got an error after finishing […]

Same story—“file xfer error”—on the second task. And earlier today I noticed that my G4 had also got a similar error.
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Message 3875 - Posted: 10 Apr 2008, 9:55:44 UTC

Just got and error
resultid=885909
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caesar1987

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Message 3882 - Posted: 11 Apr 2008, 22:06:29 UTC

http://boinc.bakerlab.org/rosetta/result.php?resultid=154724926

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<stderr_txt>
# cpu_run_time_pref: 10800
# random seed: 3452880
# cpu_run_time_pref: 10800
# random seed: 3452880
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 7008.12 cpu seconds
This process generated 1 decoys from 1 attempts
======================================================


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

</stderr_txt>
]]>

what are the warnings?
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AdeB
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Message 3890 - Posted: 12 Apr 2008, 12:02:33 UTC

2 errors, both on linux PC\'s.

resultid=905699
stderr out:
<core_client_version>5.10.28</core_client_version>
<![CDATA[
<message>
process exited with code 193 (0xc1, -63)
</message>
<stderr_txt>
Graphics are disabled due to configuration...
# cpu_run_time_pref: 14400
# random seed: 1398092
SIGSEGV: segmentation violation
Stack trace (14 frames):
[0x8e1b49b]
[0x8e15d8c]
[0xffffe420]
[0x8c836d4]
[0x87d2748]
[0x87d7a5e]
[0x8d6bbd9]
[0x8b89e24]
[0x8b8c203]
[0x8629ccb]
[0x8768a9f]
[0x8768b4a]
[0x8e80034]
[0x8048111]

Exiting...

</stderr_txt>
]]>

resultid=885864
stderr out:
<core_client_version>5.10.28</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: 14400
# random seed: 1417106
ERROR:: Exit from: minimize.cc line: 2088

</stderr_txt>
]]>
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Message 3895 - Posted: 13 Apr 2008, 18:06:25 UTC
Last modified: 13 Apr 2008, 18:07:35 UTC

I\'ve got a couple of Application error today
It just reads that the program and the module is \"incorrect\" (\"Felaktigt\")

A clip from the log:

Felaktigt program rosetta_beta_5.96_windows_intelx86.exe, version 0.0.0.0, felaktig modul rosetta_beta_5.96_windows_intelx86.exe, version 0.0.0.0, felaktig adress 0x00850364.
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Message 3897 - Posted: 13 Apr 2008, 20:47:39 UTC

2tif__BOINC_GEOSOL_ABRELAX-2tif_-_3497_18 and 1dtj__BOINC_GEOSOL_ABRELAX-1dtj_-_3497_4 ended with Exit status 193 (0xc1) on my ppc Mac. There is a long stderr out for both mentioning a segmentation violation. The second wu also errored out on a windows machine, this time with Exit status -1073741819 (0xffffffffc0000005) Unhandled Exception Detected...
- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x00737A21 read attempt to address 0x3DFF41FC
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Evan

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Message 3898 - Posted: 13 Apr 2008, 22:36:06 UTC

I have had trouble with this one. It got to .44% three times and stopped. The graphics didn\'t activate either. Every time it got to this point a message was sent to Ralph@home. I notice that I am the second person to fail on this work unit.

914765

1dtj__BOINC_GEOSOL_ABRELAX-1dtj_-_3497_10_1

I have had a few other ones that stopped also with no graphics but on exiting Boinc and restarting they completed without problems.
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Message 3899 - Posted: 13 Apr 2008, 22:56:12 UTC
Last modified: 13 Apr 2008, 23:03:29 UTC

This time my ppc mac was able to complete a model but I notice that the first computer to try it, a intel mac , ended with another exit status 193(0xc1). I was able to open and view the graphics window without causing a problem.

1di2__BOINC_GESOL_LKSOL_MIX_ABRELAX-1di2_-_3497_13

I do realize it\'s not exactly the same type of wu but thought it might be sufficiently similar that a report could be helpful.

edit/ And another bites the dust. 1dcj__BOINC_GEOSOL_ABRELAX-1dcj_-_3497_18. Both attempts, one ppc mac, one windows, same errors as before. No attempt to look at graphics this time, at least by me.
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