minirosetta 1.19 bug thread

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James
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Message 3991 - Posted: 5 May 2008, 9:04:33 UTC

Post bugs related to minirosetta v1.19 here!
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Message 3992 - Posted: 5 May 2008, 13:12:46 UTC
Last modified: 5 May 2008, 13:34:27 UTC

Project status display shows the feeder is down.
BOINC Client shows :

Message from server: Project encountered internal error: shared memory

This has been occuring at least since 03:19 Pacific time.
Can\'t complete a scheduler update to report my completed task.
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Message 3993 - Posted: 5 May 2008, 17:39:47 UTC
Last modified: 5 May 2008, 17:44:22 UTC

A compute error to report on 2900+ seconds of CPU time.

I was the wingman on this task, and I got the same error as the first person who attempted it.
RALPH and Rosie sittin' in a tree,
F - O - L - D - I - N - G!
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Message 3995 - Posted: 6 May 2008, 2:56:02 UTC
Last modified: 6 May 2008, 2:56:48 UTC

Another compute error to report, although this one needed only 20 seconds to error out.
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Message 3997 - Posted: 6 May 2008, 23:31:01 UTC - in response to Message 3995.  

Another compute error to report, although this one needed only 20 seconds to error out.

My mtlr_test1_3612_2_0 was apparently a sibling of the mentioned mtlr_test1_3612_3_0 and exited nearly the same way:
<message>
process exited with code 1 (0x1, -255)
</message>
<stderr_txt>
WARNING: Override of option -out:nstruct sets a different value

</stderr_txt>


Peter
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Message 3998 - Posted: 7 May 2008, 9:28:12 UTC

Rack up another \"compute error\" for me and my wing man. This one failed immediately at start up on my PC:

Task ID 949788
Name fa_max_dis_9-1c8cA-test_2008-5-6_3655_9_1
Workunit 842742
Outcome Client error
Client state Compute error
Exit status 1 (0x1)

stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
ERROR: Option matching -psipred_ss2:1c8cA.fa_max_dis_9.psipred_ss2 not found in command line top-level context

</stderr_txt>

]]>


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Message 3999 - Posted: 7 May 2008, 11:40:41 UTC - in response to Message 3998.  

Rack up another \"compute error\" for me and my wing man. This one failed immediately at start up on my PC:

Task ID 949788
Name fa_max_dis_9-1c8cA-test_2008-5-6_3655_9_1
Workunit 842742
Outcome Client error
Client state Compute error
Exit status 1 (0x1)

stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
ERROR: Option matching -psipred_ss2:1c8cA.fa_max_dis_9.psipred_ss2 not found in command line top-level context

</stderr_txt>

]]>

Similar error in resultid=950615

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<message>
process exited with code 1 (0x1, -255)
</message>
<stderr_txt>
ERROR: Option matching -psipred_ss2:1opd_.fa_max_dis_9.psipred_ss2 not found in command line top-level context

</stderr_txt>
]]>
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Profile David Emigh
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Message 4001 - Posted: 7 May 2008, 14:19:23 UTC
Last modified: 7 May 2008, 14:20:05 UTC

Here\'s another error like the last several reported in this thread:
ERROR: Option matching -psipred_ss2:1tul_.fa_max_dis_9.psipred_ss2 not found in command line top-level context

I was the wingman. Both computers kicked this one out in 0 seconds.
RALPH and Rosie sittin' in a tree,
F - O - L - D - I - N - G!
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Message 4003 - Posted: 7 May 2008, 16:31:33 UTC

Add one more \"compute error\" for me and my wing man. This also failed immediately at start up on my PC:

Task ID 950663
Name fa_max_dis_9-1bq9A-test_2008-5-6_3655_3_1
Workunit 842405

stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
ERROR: Option matching -psipred_ss2:1bq9A.fa_max_dis_9.psipred_ss2 not found in command line top-level context

</stderr_txt>

]]>


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Message 4004 - Posted: 7 May 2008, 22:18:15 UTC

Hi

I just had this error:

2008/05/08 0:06:50|ralph@home|Starting fa_max_dis_9-1cg5B-test_2008-5-6_3655_3_0
2008/05/08 0:06:51|ralph@home|Starting task fa_max_dis_9-1cg5B-test_2008-5-6_3655_3_0 using minirosetta version 119
2008/05/08 0:07:09|ralph@home|Computation for task fa_max_dis_9-1cg5B-test_2008-5-6_3655_3_0 finished
2008/05/08 0:07:09|ralph@home|Output file fa_max_dis_9-1cg5B-test_2008-5-6_3655_3_0_0 for task fa_max_dis_9-1cg5B-test_2008-5-6_3655_3_0 absent

<stderr_txt>
ERROR: Option matching -psipred_ss2:1cg5B.fa_max_dis_9.psipred_ss2 not found in command line top-level context
</stderr_txt>

Seems to be the same type of error as others have posted?
Rod

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Message 4005 - Posted: 8 May 2008, 2:06:24 UTC
Last modified: 8 May 2008, 2:10:31 UTC

Here\'s a new one:

ERROR: Cannot open 9-mer fragment library file: 9merfile

I was the wingman. Neither computer lasted even a full second.
RALPH and Rosie sittin' in a tree,
F - O - L - D - I - N - G!
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Message 4006 - Posted: 8 May 2008, 2:14:26 UTC
Last modified: 8 May 2008, 2:15:35 UTC

These -psipred tasks seem to be problematic:

resultid=950853

I was the wingman. Both computers errored instantly.
RALPH and Rosie sittin' in a tree,
F - O - L - D - I - N - G!
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Message 4007 - Posted: 8 May 2008, 8:54:25 UTC

This one failed in a matter of seconds. It seems a little different from the others mentioned.

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>

ERROR: Error: can\'t read sequence! Use -in::file::fasta sequence.fasta or -in::file::native native.pdb!
ERROR:: Exit from: ..\\..\\src\\protocols\\abinitio\\AbrelaxApplication.cc line: 363
called boinc_finish

</stderr_txt>
]]>

==Mike
Don't believe everything you think.
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Message 4008 - Posted: 8 May 2008, 9:59:20 UTC - in response to Message 4005.  

Here\'s a new one:

ERROR: Cannot open 9-mer fragment library file: 9merfile

The same here, twice: mtlr_test2_S.00000001.440_3671_1_1 and mtlr_test2_S.00000001.84_3671_1_1:
process exited with code 1 (0x1, -255)
ERROR: Cannot open 9-mer fragment library file: 9merfile
ERROR:: Exit from: src/protocols/frags/TorsionFragment.cc line: 70


Peter
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Message 4009 - Posted: 8 May 2008, 14:57:56 UTC
Last modified: 8 May 2008, 15:00:26 UTC

Three errors to report, all on different computers, but have the same error message:
WARNING: Override of option -out:nstruct sets a different value

ERROR: NANs occured in hbonding!
ERROR:: Exit from: ..\\..\\src\\core\\scoring\\hbonds\\hbonds_geom.cc line: 749

resultid=951829
resultid=951656
resultid=951591
RALPH and Rosie sittin' in a tree,
F - O - L - D - I - N - G!
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Message 4010 - Posted: 8 May 2008, 20:02:54 UTC

Same failure for me and my wingman> TorsionFragment.cc

Task ID 951570
Name mtlr_test2_S.00000001.23_3671_1_1
Workunit 843969

stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>

ERROR: Cannot open 9-mer fragment library file: 9merfile

ERROR:: Exit from: ..\\..\\src\\protocols\\frags\\TorsionFragment.cc line: 70

called boinc_finish

</stderr_txt>
]]>


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Message 4011 - Posted: 8 May 2008, 20:20:44 UTC

Same failure for me and my wingman> hbonds_geom.cc line: 749

Task ID 951690
Name mtlr_test2_S.00000001.1529_3672_1_1
Workunit 844102

stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
WARNING: Override of option -out:nstruct sets a different value

ERROR: NANs occured in hbonding!
ERROR:: Exit from: ..\\..\\src\\core\\scoring\\hbonds\\hbonds_geom.cc line: 749

called boinc_finish

</stderr_txt>
]]>


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Message 4012 - Posted: 8 May 2008, 20:24:51 UTC

Same failure for me and my wingman> hbonds_geom.cc line: 749

Task ID 951691
Name mtlr_test2_S.00000001.1532_3672_1_1
Workunit 844103

stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
WARNING: Override of option -out:nstruct sets a different value

ERROR: NANs occured in hbonding!
ERROR:: Exit from: ..\\..\\src\\core\\scoring\\hbonds\\hbonds_geom.cc line: 749

called boinc_finish

</stderr_txt>
]]>


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Message 4013 - Posted: 8 May 2008, 21:01:36 UTC

resultid=950809

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<stderr_txt>
# cpu_run_time_pref: 14400
======================================================
DONE :: 1 starting structures 11991.7 cpu seconds
This process generated 2 decoys from 2 attempts
======================================================

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

</stderr_txt>
<message>
<file_xfer_error>
<file_name>1tig__BOINC_ABRELAX_IGNORE_THE_REST-S25-17-S3-17--1tig_-_3581_28_1_0</file_name>
<error_code>-161</error_code>
</file_xfer_error>

</message>
]]>
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Message 4014 - Posted: 9 May 2008, 18:08:14 UTC

Rosetta mini still refuses to start on my PC (it says running but no processing ever happens) I\'ve had this issue since 1.15 and still 1.19, and it happens on 2 of my 3 computers. I will have to keep aborting these until this gets fixed, sorry.

Could there please be a way to opt out of this mini project as well?
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