Posts by AdeB

1) Message boards : RALPH@home bug list : Minirosetta 3.05 (Message 5291)
Posted 9 May 2011 by AdeB
Post:
This task: Valid and Success, but it ran twice???
stderr out:
<core_client_version>6.10.58</core_client_version>
<![CDATA[
<stderr_txt>
[2011- 5- 8 16:37:52:] :: BOINC:: Initializing ... ok.
[2011- 5- 8 16:37:52:] :: BOINC :: boinc_init()
BOINC:: Setting up shared resources ... ok.
BOINC:: Setting up semaphores ... ok.
BOINC:: Updating status ... ok.
BOINC:: Registering timer callback... ok.
BOINC:: Worker initialized successfully. 
Registering options.. 
Registered extra options.
Initializing broker options ...
Registered extra options.
Initializing core...
Initializing options.... ok 
Options::initialize()
Options::adding_options()
Options::initialize() Check specs.
Options::initialize()  End reached
Loaded options.... ok 
Processed options.... ok 
Initializing random generators... ok 
Initialization complete. 
Setting WU description ...
Unpacking zip data: ../../projects/ralph.bakerlab.org/minirosetta_database_rev39052.zip
Setting database description ...
Setting up checkpointing ...
Setting up graphics native ...
BOINC:: Worker startup. 
Starting watchdog...
Watchdog active.
# cpu_run_time_pref: 14400
======================================================
DONE ::    10 starting structures  19496.9 cpu seconds
This process generated     10 decoys from      10 attempts
======================================================

BOINC :: Watchdog shutting down...
BOINC :: BOINC support services shutting down cleanly ...
called boinc_finish
[2011- 5- 9  6:52:14:] :: BOINC:: Initializing ... ok.
[2011- 5- 9  6:52:14:] :: BOINC :: boinc_init()
BOINC:: Setting up shared resources ... ok.
BOINC:: Setting up semaphores ... ok.
BOINC:: Updating status ... ok.
BOINC:: Registering timer callback... ok.
BOINC:: Worker initialized successfully. 
Registering options.. 
Registered extra options.
Initializing broker options ...
Registered extra options.
Initializing core...
Initializing options.... ok 
Options::initialize()
Options::adding_options()
Options::initialize() Check specs.
Options::initialize()  End reached
Loaded options.... ok 
Processed options.... ok 
Initializing random generators... ok 
Initialization complete. 
Setting WU description ...
Unpacking zip data: ../../projects/ralph.bakerlab.org/minirosetta_database_rev39052.zip
Setting database description ...
Setting up checkpointing ...
Setting up graphics native ...
BOINC:: Worker startup. 
Starting watchdog...
Watchdog active.
# cpu_run_time_pref: 14400
======================================================
DONE ::     2 starting structures  19550.3 cpu seconds
This process generated      2 decoys from       2 attempts
======================================================

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

</stderr_txt>
]]>


Adeb
2) Message boards : RALPH@home bug list : Minirosetta 3.05 (Message 5289)
Posted 8 May 2011 by AdeB
Post:
All my MVH_2s wus have problem with graphic...


Here graphics are fine.
Except for very strange values for Total credit (8.66292E+71) and RAC (2.05568E-24), but it has always been like that.

AdeB
3) Message boards : RALPH@home bug list : minirosetta 2.17 (Message 5230)
Posted 16 Dec 2010 by AdeB
Post:
task: 2008439

ERROR: Option matching -relax:fastrelax_repeats not found in command line top-level context


AdeB
4) Message boards : RALPH@home bug list : minirosetta 2.17 (Message 5208)
Posted 4 Nov 2010 by AdeB
Post:
Task: 1978682
Workunit: t591__boinc_rosetta_cm_loopbuild_threading_cst_relax_wangyr_IGNORE_THE_REST_15010_10

stderr out:
ERROR: Option matching -relax:fastrelax_repeats not found in command line top-level context


AdeB
5) Message boards : RALPH@home bug list : Minirosetta 2.14 (Message 5171)
Posted 7 Sep 2010 by AdeB
Post:
SAXS-rescore-1qfjC__14882_5_0

stderr out:
ERROR: ERROR: Unable to open silent_input file: 'default.out'
ERROR:: Exit from: src/core/io/silent/SilentFileData.cc line: 86
BOINC:: Error reading and gzipping output datafile: default.out
called boinc_finish
Watchdog active.


AdeB
6) Message boards : RALPH@home bug list : Minirosetta 2.14 (Message 5166)
Posted 6 Sep 2010 by AdeB
Post:
SAXS-rescore-1ks9A__14879_6_1

The same error as Snagletooth.
ma 06 sep 2010 17:07:49 CEST	ralph@home	Output file SAXS-rescore-1ks9A__14879_6_1_0 for task SAXS-rescore-1ks9A__14879_6_1 absent

stderr out:
======================================================
DONE ::     1 starting structures  13314.1 cpu seconds
This process generated      9 decoys from       9 attempts
======================================================

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

</stderr_txt>
<message>
<file_xfer_error>
  <file_name>SAXS-rescore-1ks9A__14879_6_1_0</file_name>
  <error_code>-161</error_code>
</file_xfer_error>


AdeB
7) Message boards : RALPH@home bug list : minirosetta 2.05 (Message 5082)
Posted 26 Feb 2010 by AdeB
Post:
1544269
1544268
1544270
1544271

After different calculation times, all the same error:

ERROR: [ERROR] Unable to open constraints file: aqp9_.dist_csts
ERROR:: Exit from: ..\..\src\core\scoring\constraints\ConstraintIO.cc line: 332
BOINC:: Error reading and gzipping output datafile: default.out
called boinc_finish


Same error in task 1750870.

AdeB
8) Message boards : RALPH@home bug list : minirosetta 2.05 (Message 5071)
Posted 13 Feb 2010 by AdeB
Post:
File transfer errors!!!

Task 1740222:

<file_xfer_error>
  <file_name>igfhum_brub1_2dsrI_1ZZK_ProteinInterfaceDesign_12Feb2010_14321_1_0_0</file_name>
  <error_code>-161</error_code>
</file_xfer_error>

Simmilar errors in tasks 1740267 and 1741847.

AdeB
9) Message boards : RALPH@home bug list : minirosetta 2.05 (Message 5068)
Posted 8 Feb 2010 by AdeB
Post:
Task 1738713 was marked Invalid. One of those 578 decoys must have been valid!

AdeB
10) Message boards : RALPH@home bug list : minirosetta 2.05 (Message 5060)
Posted 3 Feb 2010 by AdeB
Post:
Task 1734255

<message>
Maximum memory exceeded
</message>


AdeB
11) Message boards : RALPH@home bug list : minirosetta 2.05 (Message 5054)
Posted 30 Jan 2010 by AdeB
Post:
Task 1731436 had a normal runtime, was a success and is valid; however there is an ERROR in stderr out:

ERROR: unknown atom_name: ILE  CG
ERROR:: Exit from: src/core/chemical/ResidueType.cc line: 1382

AdeB
12) Message boards : RALPH@home bug list : minirosetta 2.01/2.02 (Message 5006)
Posted 4 Dec 2009 by AdeB
Post:
Task: 1672358
Name: lr_mix_sc12_run01_rlbd_1acf_SAVE_ALL_OUT_IGNORE_THE_REST_lr10_DECOY_13301_1_0
stderr out:
[color=red]ERROR: res2.connections_to_residue( res1 ).size() == 1
ERROR:: Exit from: src/core/scoring/etable/count_pair/CountPairFactory.cc line: 64
[/color]

AdeB
13) Message boards : RALPH@home bug list : Minirosetta 2.00 (Message 5004)
Posted 26 Nov 2009 by AdeB
Post:
It looks like sooner or later most those lr5_combine_smooth_torsion_it00_redo_rama tasks end with: SIGSEGV: segmentation violation.

errors:
1666732
1667706
1668524
1668719
1668876
1669758

and one succes:
1669780

AdeB
14) Message boards : RALPH@home bug list : Minirosetta 2.00 (Message 5003)
Posted 26 Nov 2009 by AdeB
Post:
Task 1666440 ended with SIGSEGV: segmentation violation.
Workunit: lr5_combine_smooth_torsion_it00_redo_rama00_A_rlbn_1ten_SAVE_ALL_OUT_IGNORE_THE_REST_NATIVE_NOCON_13223_1
Computer / OS: AMD Phenom(tm) II / Linux

AdeB
15) Message boards : RALPH@home bug list : Minirosetta 2.00 (Message 5002)
Posted 24 Nov 2009 by AdeB
Post:
Another error: task 1663470
Workunit: 2cgq_1yul.revert2.pdb.gz_dock_rmsd.xml__13145_7
Computer / OS: AMD Athlon XP 2000 / linux
stderr out:
[color=red]*** glibc detected *** free(): invalid next size (fast): 0x0fcbd1b8 ***[/color]
SIGABRT: abort called
Stack trace (28 frames):
[0x9667f13]
[0x9691de8]
[0xffffe420]
... etc

AdeB
16) Message boards : RALPH@home bug list : Minirosetta 2.00 (Message 5001)
Posted 23 Nov 2009 by AdeB
Post:
Quick failure in task 1662439.
Workunit: 2cgq_1yul.revert2.pdb.gz_dock_rmsd.xml__13145_1.
Computer / OS: AMD Phenom II / linux
stderr out:
...
Starting watchdog...
Watchdog active.
# cpu_run_time_pref: 14400
SIGABRT: abort called
Stack trace (24 frames):
[0x9667f13]
[0x9691de8]
[0xf7fd8400]
... etc
17) Message boards : RALPH@home bug list : Minirosetta 1.95 (Message 4970)
Posted 20 Sep 2009 by AdeB
Post:
Interesting stderr out in this task.

stderr out:
<core_client_version>5.10.45</core_client_version>
<![CDATA[
<message>
Maximum disk usage exceeded
</message>
<stderr_txt>
OGFUNC 50 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 8.6 6 0.02 9 0 0.02 9 0 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 8.7 8 0.02 8.7 8 0.02 9 3 0.02 9 0 0.02 9 0 0.02 9 3 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 0 0.02 9.1 3 0.02 8.6 6 0.02
bounds error (radius =8.96584), def = SOGFUNC 50 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 8.6 6 0.02 9 0 0.02 8.6 6 0.02 8.6 6 0.02 9 0 0.02 9 0 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 3 0.02 8.7 8 0.02 8.7 8 0.02 9 3 0.02 9 0 0.02 9 0 0.02 9 3 0.02 8.6 6 0.02 9 3 0.02 9 0 0.02 8.6 6 0.02 9 0 0.02 9.1 3 0.02 8.6 6 0.02
bounds error (radius =8.33761), def = SOGFUNC 50 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.1 5 0.02 8.1 3 0.02 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.1 3 0.02 8.1 5 0.02 8.1 3 0.02 8.1 5 0.02 8.1 3 0.02 8.1 3 0.02 8.1 5 0.02 8.1 3 0.02 8.1 3 0.02 8.1 5 0.02 8.1 5 0.02 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.1 5 0.02 8.1 3 0.02 7.9 8 0.02 8.2 4 0.02 8.2 4 0.02 7.9 8 0.02 8.1 5 0.02 8.1 5 0.02 7.9 8 0.02 8.1 3 0.02 7.9 8 0.02 8.1 5 0.02 8.1 3 0.02 8.1 5 0.02 8.2 0 0.02 8.1 3 0.02

... and many more 


AdeB
18) Message boards : RALPH@home bug list : Minirosetta 1.95 (Message 4933)
Posted 25 Aug 2009 by AdeB
Post:
I had to kill this task. It made other applications crash and claimed almost all of the memory (including virtual memory).

AdeB
19) Message boards : RALPH@home bug list : Minirosetta 1.95 (Message 4927)
Posted 22 Aug 2009 by AdeB
Post:
<message>
Maximum memory exceeded
</message>

in task 1578464

AdeB
20) Message boards : RALPH@home bug list : Minirosetta 1.93 (Message 4925)
Posted 16 Aug 2009 by AdeB
Post:
Here are two more:
1576594
1577231

AdeB


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