minirosetta 2.05

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Profile dekim
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Message 5039 - Posted: 12 Jan 2010, 0:53:43 UTC
Last modified: 12 Jan 2010, 0:59:41 UTC

This version update includes a checkpointing fix and minor code updates.

Please post bugs/issues here.

FYI, I skipped over version 2.04 on purpose. I was about to update the 2.04 app but part way through the updating process I had to include some other code updates.

thanks,

David K
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Message 5041 - Posted: 13 Jan 2010, 11:15:15 UTC

2.05 task 9gbnnotyr_3gbn_1e5k_9Jan2010_13807_1_0 finished succesully, validate error occured.
4CPU Xeon 2.83GHz, 8GB RAM, XP x64.
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Message 5042 - Posted: 13 Jan 2010, 22:30:36 UTC
Last modified: 13 Jan 2010, 22:32:18 UTC

2.05 task run2.loopbuild_hb_t286__IGNORE_THE_REST_13813_9_1 errored out after 25s.
4CPU Xeon 2.83GHz, 8GB RAM, XP x64.

<core_client_version>6.10.24</core_client_version>
<![CDATA[
<message>
- exit code -1073741819 (0xc0000005)
</message>
<stderr_txt>
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Message 5052 - Posted: 24 Jan 2010, 23:52:04 UTC

validate errors

tyrsim_3gbn_2qzq_20Jan2010_14017_2

There are a couple of 2.05 bug reports in the 2.03 thread. You might want to sticky this thread and unsticky the 2.03 thread.

Snags
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Message 5054 - Posted: 30 Jan 2010, 11:16:18 UTC

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

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Message 5055 - Posted: 1 Feb 2010, 8:56:15 UTC
Last modified: 1 Feb 2010, 8:58:25 UTC

After 10 seconds, task 1733723

ERROR: ERROR: FragmentIO: could not open file aa1mq9A09_05.200_v1_3.gz
ERROR:: Exit from: ..\..\src\core\fragment\FragmentIO.cc line: 258
BOINC:: Error reading and gzipping output datafile: default.out
called boinc_finish
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Message 5057 - Posted: 3 Feb 2010, 8:14:24 UTC

A lot of validate error:
1734687
1734658
1734657


# cpu_run_time_pref: 14400
======================================================
DONE :: 2 starting structures 13935.9 cpu seconds
This process generated 2 decoys from 2 attempts
======================================================

BOINC :: Watchdog shutting down...
BOINC :: BOINC support services shutting down cleanly ...
called boinc_finish
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Profile morse [E.R.] - BOINC.Italy

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Message 5059 - Posted: 3 Feb 2010, 13:26:27 UTC

Validate Error:

1735917
1735916

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Message 5060 - Posted: 3 Feb 2010, 17:01:31 UTC

Task 1734255

<message>
Maximum memory exceeded
</message>


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Message 5061 - Posted: 5 Feb 2010, 11:25:33 UTC

Work units failing with "Validate Error", all show no errors in readout and all have produced successful decoy runs, why have they been marked as faulty?

See 1735252
1737376
1737381
1737630
1737631

Thanks
Conan.
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Message 5062 - Posted: 5 Feb 2010, 11:43:50 UTC

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Message 5063 - Posted: 5 Feb 2010, 15:28:42 UTC

tyrsim_3gbn_2qsb_Protein_interface_design_01Feb2010_14280_2 (Validate Error for task 1735683, second task succeeded)
tyrsim_3gbn_2qsv_Protein_interface_design_01Feb2010_14280_2 (Validate Error for task 1735685, second task succeeded)
tyrsim_3gbn_2qvk_Protein_interface_design_01Feb2010_14280_2 (Validate Error for task 1735699, second task succeeded)
dckCFA_1sq2_2ODU_ppk_0025_foldit_ProteinInterfaceDesign_3Feb2010_14288_4 (Compute Error for both tasks, file_xfer_error)
dckCFA_1sq2_1GS9_ppk_0056_0001_ProteinInterfaceDesign_3Feb2010_14288_7 (Compute Error for both tasks, file_xfer_error)
dckCFA_1sq2_1GS9_ppk_0056_0001_ProteinInterfaceDesign_3Feb2010_14288_4 (Compute Error for both tasks, file_xfer_error)
dckCFA_1sq2_3EGN_ppk_0002_foldit_ProteinInterfaceDesign_3Feb2010_14286_1 (Validate Error for both tasks)
1fxaA_boinc_70pct_loopbuild_threading_cst_relax_tex_IGNORE_THE_REST_14292_7 (Validate Error for task 1737477, second task succeeded)
1hz6A_boinc_70pct_loopbuild_threading_cst_relax_tex_IGNORE_THE_REST_14292_7 (Validate Error for task 1737482, second task succeeded)
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Message 5064 - Posted: 5 Feb 2010, 21:11:12 UTC

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Message 5065 - Posted: 6 Feb 2010, 1:59:28 UTC

I have got compute errors on Mac OS X 10.6 for 4 tasks named

1738219 dckCFA_1sq2_3EGN_ppk_0002_foldit_ProteinInterfaceDesign_3Feb2010_14288_1_1
1738220 dckCFA_1sq2_2ODU_ppk_0025_foldit_ProteinInterfaceDesign_3Feb2010_14288_2_1
1738221 dckCFA_1sq2_2OJ4_ppk_0050_ProteinInterfaceDesign_3Feb2010_14288_2_1
1738222 dckCFA_1sq2_3ce7_0044_foldit_ProteinInterfaceDesign_3Feb2010_14288_2_1

All seemed to complete OK but gave an error code at the end.

</stderr_txt>
<message>
<file_xfer_error>
<file_name>dckCFA_1sq2_2ODU_ppk_0025_foldit_ProteinInterfaceDesign_3Feb2010_14288_2_1_0</file_name>
<error_code>-161</error_code>
</file_xfer_error>

My wingmen seemed to have similar problems
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Message 5066 - Posted: 6 Feb 2010, 3:54:21 UTC
Last modified: 6 Feb 2010, 4:03:35 UTC

1533632dckCFA_1sq2_1s3g_0018_foldit_ProteinInterfaceDesign_3Feb2010_14288_2

errored out
<core_client_version>6.6.28</core_client_version>
<![CDATA[
<message>
Maximum disk usage exceeded
</message>
]]>

validate errors:
1534306 1ifcA_boinc_70pct_loopbuild_threading_cst_relax_tex_IGNORE_THE_REST_14292_7
1534258 1l23A_boinc_70pct_loopbuild_threading_cst_relax_tex_IGNORE_THE_REST_14292_6
15343321shgA_boinc_70pct_loopbuild_threading_cst_relax_tex_IGNORE_THE_REST_14292_7
1534338200lA_boinc_70pct_loopbuild_threading_cst_relax_tex_IGNORE_THE_REST_14292_7

Win XP x64, 4CPU Xeon 2.83 GHz, 8GB RAM
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Message 5067 - Posted: 6 Feb 2010, 19:12:50 UTC

Validate Error:

1735938
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Message 5068 - Posted: 8 Feb 2010, 18:35:27 UTC

Task 1738713 was marked Invalid. One of those 578 decoys must have been valid!

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Message 5069 - Posted: 11 Feb 2010, 6:47:38 UTC

This Work unit was running for nearly 8 hours at 0.050% completed and 24 hours to go.
It looks like it has then failed not long after I looked at it.
The CPU recorded time says 22 minutes, so the WU was probably not using any CPU but the time was still ticking over.

This WU
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Message 5070 - Posted: 11 Feb 2010, 11:05:32 UTC

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Message 5071 - Posted: 13 Feb 2010, 13:40:22 UTC

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
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