Minirosetta 3.73-3.78

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Profile [VENETO] boboviz

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Message 89649 - Posted: 27 Sep 2018, 5:32:15 UTC - in response to Message 89533.  

ERROR: ERROR: FragmentIO: could not open file 00001.200.9mers
ERROR:: Exit from: ..\..\..\src\core\fragment\FragmentIO.cc line: 233


After 2 years of this app there are errors again...
Debug it or abandon it to pass all on 4.x version, that's the question


Again, all "fadh_" same error
1031043219
1031043121
etc
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James W

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Message 89728 - Posted: 18 Oct 2018, 5:42:13 UTC
Last modified: 18 Oct 2018, 5:46:44 UTC

Application version Rosetta Mini v3.78 windows_intelx86
Device: 1759960, Task: 1035025133, and WU: 932433296.
Status: Invalid.
Outcome: Validate error.
Errors: Error while computing.

Strange that the WU was given credit and even was considered the canonical WU. However, later determined in error??
name: foldit_2005364_0004_fold_and_dock_SAVE_ALL_OUT_686935_8779
application: Rosetta Mini
created: 16 Oct 2018, 17:49:03 UTC
canonical result: 1035025133
granted credit: 6.39

Starting watchdog...
Watchdog active.
Continuing computation from checkpoint: chk_S_00005_FragmentSampler__rg_state ... success!
Continuing computation from checkpoint: chk_S_00005_FragmentSampler__stage1 ... success!
Continuing computation from checkpoint: chk_S_00005_FragmentSampler__stage2 ... success!
Continuing computation from checkpoint: chk_S_00005_FragmentSampler__stage3 ... success!
Continuing computation from checkpoint: chk_S_00005_FragmentSampler__stage4_kk_1 ... success!
Continuing computation from checkpoint: chk_S_00005_FragmentSampler__stage4_kk_2 ... success!

ERROR: std::abs( coordsys_rot.det() - 1.0 ) < 1e-6
ERROR:: Exit from: ..\..\..\src\core\pose\symmetry\util.cc line: 884
called boinc_finish
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James W

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Message 89732 - Posted: 18 Oct 2018, 9:33:56 UTC

Application version Rosetta Mini v3.78 windows_intelx86
Device: 1759960, Task: 1035036274, and WU: 932443176.
Status: Completed and validated.
Outcome: Success.
Continuing computation from checkpoint: chk_S_00047_FragmentSampler__rg_state ... success!
Continuing computation from checkpoint: chk_S_00047_FragmentSampler__stage1 ... success!
Continuing computation from checkpoint: chk_S_00047_FragmentSampler__stage2 ... success!
Continuing computation from checkpoint: chk_S_00047_FragmentSampler__stage3 ... success!
Continuing computation from checkpoint: chk_S_00047_FragmentSampler__stage4_kk_1 ... success!

ERROR: std::abs( coordsys_rot.det() - 1.0 ) < 1e-6
ERROR:: Exit from: ..\..\..\src\core\pose\symmetry\util.cc line: 884
called boinc_finish

This appears to be the same result as noted in my previous post (Message 89728), notably the stated errors. Why was that one considered a validation error and this one a valid WU? Also wondering why the WU in my previous post wasn't reassigned to another host if WU otherwise OK?
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fcbrants
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Message 89755 - Posted: 23 Oct 2018, 21:31:59 UTC

Hello!!

I'm getting an error, "<message>finish file present too long</message> after a WU has completed.

Win 7 SP2, Fully up2date 64 Bit, BOINC 7.12.1 x64, Rosetta Mini v3.78 windows_intelx86

This machine is my "daily driver" & I use it for other non-demanding tasks.

I WAS running BOINC on 100% of the CPU's & the machine DID get sluggish at times.

http://boinc.bakerlab.org/show_host_detail.php?hostid=1606827

http://boinc.bakerlab.org/rosetta/results.php?userid=472655&offset=0&show_names=0&state=6&appid=

I've searched this forum & couldn't find an answer...

This appears to be an old issue that's ostensibly been resolved, and it hasn't been discussed since 2016:

https://www.google.com/search?ei=ApjHW7A955e2BeO1tPAL&q=%22finish+file+present+too+long%22&oq=%22finish+file+present+too+long%22&gs_l=psy-ab.3..0i7i30.967651.971417..972092...0.0..0.54.103.2......0....1..gws-wiz.......0i71j0i22i30.6CEhGn3jHEY


<core_client_version>7.12.1</core_client_version>
<![CDATA[
<message>
finish file present too long</message>

I'm backing the "Use at Most" CPU's to 93.75% (30 of 32 threads, 15/16 cores) & setting the project to No New Tasks until I can get this resolved.

I did find messages in the error log:

10/22/2018 7:47:43 AM | Rosetta@home | Task jelva126_mut_5_9tcssm_73_K_0251_0001_0006_fragments_relax_SAVE_ALL_OUT_700558_46_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva118_mut_5_8tcssm_73_K_0251_0001_0008_fragments_relax_SAVE_ALL_OUT_700549_46_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva76_mut_5_4tcssm_73_K_0251_0001_0006_fragments_fold_SAVE_ALL_OUT_700633_96_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task DSIGG99_DEHCFABG_s00880005aa336a56_0002_0001_fragments_fold_SAVE_ALL_OUT_700443_272_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva2_mut_5_10tcssm_61_K_0251_0001_0005_fragments_fold_SAVE_ALL_OUT_700582_96_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task DSIGG62_CDEFGBAH_s006200026a3c1c99_0001_0001_fragments_fold_SAVE_ALL_OUT_700403_280_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva117_mut_5_8tcssm_73_K_0251_0001_0007_fragments_fold_SAVE_ALL_OUT_700548_115_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task DSIGG55_BEDGHCFA_s00450008aa336a56_0002_0001_fragments_fold_SAVE_ALL_OUT_700395_280_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task DSIGG88_DEFGBAHC_s008200032b122311_0001_0001_fragments_fold_SAVE_ALL_OUT_700431_280_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva53_mut_5_2tcssm_73_K_0251_0001_0003_fragments_fold_SAVE_ALL_OUT_700608_140_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva130_mut_5_9tcssm_73_K_0251_0001_0010_fragments_fold_SAVE_ALL_OUT_700563_140_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task TJ54_IGGH_A_B_C_F_G_D_7delE_0251_0001_0004_fragments_fold_SAVE_ALL_OUT_700139_290_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva118_mut_5_8tcssm_73_K_0251_0001_0008_fragments_fold_SAVE_ALL_OUT_700549_140_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task DSIGG60_BGDEHCFA_s005600026a3c1c99_0002_0001_fragments_fold_SAVE_ALL_OUT_700401_299_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva112_mut_5_8tcssm_73_K_0251_0001_0002_fragments_fold_SAVE_ALL_OUT_700543_164_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva21_mut_5_6tcssm_61_K_0251_0001_0007_fragments_fold_SAVE_ALL_OUT_700573_189_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva94_mut_5_6tcssm_73_K_0251_0001_0004_fragments_fold_SAVE_ALL_OUT_700653_188_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva25_mut_5_8tcssm_61_K_0251_0001_0003_fragments_fold_SAVE_ALL_OUT_700577_226_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task DSIGG22_ADEHCFGB_s00150009aa336a56_0001_0001_fragments_fold_SAVE_ALL_OUT_700323_321_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva3_mut_5_10tcssm_61_K_0251_0001_0008_fragments_fold_SAVE_ALL_OUT_700593_226_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task DSIGG240_GDEFCHAB_s015900036a3c1c99_0003_0001_fragments_fold_SAVE_ALL_OUT_700335_321_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva14_mut_5_4tcssm_61_K_0251_0001_0007_fragments_fold_SAVE_ALL_OUT_700565_226_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva53_mut_5_2tcssm_73_K_0251_0001_0003_fragments_fold_SAVE_ALL_OUT_700608_246_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva15_mut_5_4tcssm_61_K_0251_0001_0009_fragments_fold_SAVE_ALL_OUT_700566_247_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task jelva78_mut_5_4tcssm_73_K_0251_0001_0008_fragments_fold_SAVE_ALL_OUT_700635_246_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.
10/22/2018 7:47:43 AM | Rosetta@home | Task TJ73_IGGH_A_B_C_F_G_D_E_8_0251_0008_fragments_fold_SAVE_ALL_OUT_700160_329_0 exited with zero status but no 'finished' file
10/22/2018 7:47:43 AM | Rosetta@home | If this happens repeatedly you may need to reset the project.

Most of the tasks mentioned in the error log do NOT show up here:

http://boinc.bakerlab.org/rosetta/results.php?userid=472655&offset=0&show_names=0&state=6&appid=

But this one does: http://boinc.bakerlab.org/result.php?resultid=1036002868

Please let me know what I can do to help troubleshoot the problem.

Thanks!!

Franko
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James W

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Message 89986 - Posted: 12 Dec 2018, 1:08:38 UTC
Last modified: 12 Dec 2018, 1:25:39 UTC

Application version Rosetta Mini v3.78 windows_intelx86
Device: 1759960, Task: 1046167754, and WU: 942459814.
Status: Error while computing.
Errors: Too many errors (may have bug) Too many total results.
Outcome: Computation error.
Errors: Error while computing.
Exit status: 1 (0x00000001) Unknown error code.
Stderr output: Incorrect function. (0x1) - exit code 1 (0x1)
ERROR: scorefxn ScoreFunction already exists in the basic::datacache::DataMap, possibly as a default scorefxn. Please rename.
ERROR:: Exit from: ..\..\..\src\protocols\jd2\parser\ScoreFunctionLoader.cc line: 208
BOINC:: Error reading and gzipping output datafile: default.out
called boinc_finish

Exit code and error messages basically the same as with previous host trying to crunch this task. Previous host was running Linux OS. Appears may be a problem with the task. If this series of tasks is not currently being reviewed, maybe a review is needed. Thank you.
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James W

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Message 89988 - Posted: 12 Dec 2018, 10:13:39 UTC

Application version Rosetta Mini v3.78 windows_intelx86
Device: 1759960, Task: 1046157137, and WU: 942471806.
Status: Error while computing.
Errors: Too many errors (may have bug) Too many total results.
Outcome: Computation error.
Errors: Error while computing.
Exit status: 1 (0x00000001) Unknown error code.
Stderr output: Incorrect function. (0x1) - exit code 1 (0x1)
ERROR: scorefxn ScoreFunction already exists in the basic::datacache::DataMap, possibly as a default scorefxn. Please rename.
ERROR:: Exit from: ..\..\..\src\protocols\jd2\parser\ScoreFunctionLoader.cc line: 208
BOINC:: Error reading and gzipping output datafile: default.out
called boinc_finish

Exit code and error messages again basically the same as with previous host trying to crunch this task. Appears may be a problem with the task itself and that this series of tasks may need to be reviewed. Hopefully not too many currently in circulation. Thank you.
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Message boards : Number crunching : Minirosetta 3.73-3.78



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