Rosetta 4.1+ and 4.2+

Message boards : Number crunching : Rosetta 4.1+ and 4.2+

To post messages, you must log in.

Previous · 1 . . . 13 · 14 · 15 · 16 · 17 · 18 · 19 . . . 33 · Next

AuthorMessage
Mod.Sense
Volunteer moderator

Send message
Joined: 22 Aug 06
Posts: 4018
Credit: 0
RAC: 0
Message 96696 - Posted: 21 May 2020, 14:57:33 UTC - in response to Message 96694.  

There have been a few changes recently.

The change to Rosetta version 4.20. If you had explicitly whitelisted a prior version in an anti-virus application, it may need to be updated for the new version.

The change in project URL to be https. Have you reconnected to the project under the new URL? If so, perhaps wget needs support for SSL? I don't know why R@h would use wget. I believe all network activity is handled via BOINC APIs.
Rosetta Moderator: Mod.Sense
ID: 96696 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
steve

Send message
Joined: 19 Apr 20
Posts: 4
Credit: 129,064
RAC: 0
Message 96699 - Posted: 21 May 2020, 18:10:05 UTC - in response to Message 96690.  

I don't think it is overheating and I don't overclock. I will get bundles of errors like that. Fine for a few days then 3 or 4 at a time. I think the 13 was due to me resetting the project.
ID: 96699 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1389
Credit: 13,693,695
RAC: 0
Message 96701 - Posted: 21 May 2020, 18:51:17 UTC - in response to Message 96699.  

I think the 13 was due to me resetting the project.
Nope, each and everyone is a Computation error, resetting the project would have them marked as Abandoned.
Grant
Darwin NT
ID: 96701 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
steve

Send message
Joined: 19 Apr 20
Posts: 4
Credit: 129,064
RAC: 0
Message 96705 - Posted: 21 May 2020, 21:38:21 UTC - in response to Message 96701.  

Is there any way of diagnosing? I am only running 50% processors / 50% time. I ran memtest86 on Tuesday and did not see any errors.
ID: 96705 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1389
Credit: 13,693,695
RAC: 0
Message 96706 - Posted: 21 May 2020, 21:59:41 UTC

Maybe wait and see for now? It looks like it most of those errors all occurred around the same time, since then other Tasks have processed without problems.
If you rebooted the system at some stage round then, that may have resolved the problem.
Just keep an eye out for new Errors.
Grant
Darwin NT
ID: 96706 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Tomcat雄猫

Send message
Joined: 20 Dec 14
Posts: 180
Credit: 5,004,906
RAC: 37
Message 96709 - Posted: 21 May 2020, 22:39:39 UTC
Last modified: 21 May 2020, 22:41:46 UTC

Got this error on my 2015 MacBook Pro.
rb_05_20_26063_25687_ab_t000__robetta_cstwt_5.0_FT_IGNORE_THE_REST_08_08_937911_17_0
https://boinc.bakerlab.org/rosetta/result.php?resultid=1185933865
<core_client_version>7.16.6</core_client_version>
<![CDATA[
<message>
process exited with code 1 (0x1, -255)</message>
<stderr_txt>
command: rosetta_4.20_x86_64-apple-darwin @rb_05_20_26063_25687_ab_t000__robetta_FLAGS -in::file::fasta t000_.fasta -jumps:pairing_file t000_.fasta.bbcontacts.jumps -jumps:random_sheets 1 -constraints::cst_file t000_.fasta.CB.cst -constraints:cst_weight 5.0 -constraints::cst_fa_file t000_.fasta.MIN.cst -constraints:cst_fa_weight 5.0 -in:file:boinc_wu_zip rb_05_20_26063_25687_ab_t000__robetta.zip -frag3 rb_05_20_26063_25687_ab_t000__robetta.200.3mers.index.gz -fragA rb_05_20_26063_25687_ab_t000__robetta.200.8mers.index.gz -fragB rb_05_20_26063_25687_ab_t000__robetta.200.8mers.index.gz -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 3235942
Using database: database_357d5d93529_n_methyl/minirosetta_database

[ ERROR ]: Caught exception:


File: src/core/pack/dunbrack/SingleResidueDunbrackLibrary.hh:306
chi angle must be between -180 and 180: nan
 ------------------------ Begin developer's backtrace ------------------------- 
BACKTRACE:
0   rosetta_4.20_x86_64-apple-darwin    0x000000010ba32630 Kernel::kernel_precomputed(int, int) const + 322720
1   rosetta_4.20_x86_64-apple-darwin    0x000000010ba31eb1 Kernel::kernel_precomputed(int, int) const + 320801
2   rosetta_4.20_x86_64-apple-darwin    0x000000010a022751 core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 753137
3   rosetta_4.20_x86_64-apple-darwin    0x000000010a020b7b core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 746011
4   rosetta_4.20_x86_64-apple-darwin    0x000000010a1fd6d6 core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 2698614
5   rosetta_4.20_x86_64-apple-darwin    0x0000000109fecf18 core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 533944
6   rosetta_4.20_x86_64-apple-darwin    0x000000010a8661e6 boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, core::pose::Pose, core::conformation::signals::XYZEvent const&>, boost::_bi::list2<boost::_bi::value<core::pose::Pose*>, boost::arg<1> > >, void, core::conformation::signals::XYZEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::XYZEvent) + 1754614
7   rosetta_4.20_x86_64-apple-darwin    0x000000010a903bc6 core::scoring::compare_by_abs(void const*, void const*) + 306326
8   rosetta_4.20_x86_64-apple-darwin    0x000000010a8fd9aa core::scoring::compare_by_abs(void const*, void const*) + 281210
9   rosetta_4.20_x86_64-apple-darwin    0x0000000109f66d53 boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::moves::PyMOLObserver, core::pose::signals::ConformationEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::moves::PyMOLObserver*>, boost::arg<1> > >, void, core::pose::signals::ConformationEvent>::invoke(boost::detail::function::function_buffer&, core::pose::signals::ConformationEvent) + 2466403
10  rosetta_4.20_x86_64-apple-darwin    0x0000000109f6f4b7 core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 19287
11  rosetta_4.20_x86_64-apple-darwin    0x0000000109f6f121 core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 18369
12  rosetta_4.20_x86_64-apple-darwin    0x0000000109f77c7e core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 54046
13  rosetta_4.20_x86_64-apple-darwin    0x0000000109f72925 core::optimization::EItem::sort_R_function(core::optimization::EItem const&, core::optimization::EItem const&) + 32709
14  rosetta_4.20_x86_64-apple-darwin    0x0000000109f6431e boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::moves::PyMOLObserver, core::pose::signals::ConformationEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::moves::PyMOLObserver*>, boost::arg<1> > >, void, core::pose::signals::ConformationEvent>::invoke(boost::detail::function::function_buffer&, core::pose::signals::ConformationEvent) + 2455598
15  rosetta_4.20_x86_64-apple-darwin    0x000000010967af14 boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::forge::build::BuildInstruction, core::conformation::signals::LengthEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::forge::build::BuildInstruction*>, boost::arg<1> > >, void, core::conformation::signals::LengthEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::LengthEvent) + 7259236
16  rosetta_4.20_x86_64-apple-darwin    0x000000010967aac2 boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::forge::build::BuildInstruction, core::conformation::signals::LengthEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::forge::build::BuildInstruction*>, boost::arg<1> > >, void, core::conformation::signals::LengthEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::LengthEvent) + 7258130
17  rosetta_4.20_x86_64-apple-darwin    0x000000010967b19d boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::forge::build::BuildInstruction, core::conformation::signals::LengthEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::forge::build::BuildInstruction*>, boost::arg<1> > >, void, core::conformation::signals::LengthEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::LengthEvent) + 7259885
18  rosetta_4.20_x86_64-apple-darwin    0x000000010923d013 boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::forge::build::BuildInstruction, core::conformation::signals::LengthEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::forge::build::BuildInstruction*>, boost::arg<1> > >, void, core::conformation::signals::LengthEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::LengthEvent) + 2811235
19  rosetta_4.20_x86_64-apple-darwin    0x000000010923e38b boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::forge::build::BuildInstruction, core::conformation::signals::LengthEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::forge::build::BuildInstruction*>, boost::arg<1> > >, void, core::conformation::signals::LengthEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::LengthEvent) + 2816219
20  rosetta_4.20_x86_64-apple-darwin    0x00000001092408ad boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::forge::build::BuildInstruction, core::conformation::signals::LengthEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::forge::build::BuildInstruction*>, boost::arg<1> > >, void, core::conformation::signals::LengthEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::LengthEvent) + 2825725
21  rosetta_4.20_x86_64-apple-darwin    0x000000010926765f boost::detail::function::void_function_obj_invoker1<boost::_bi::bind_t<void, boost::_mfi::mf1<void, protocols::forge::build::BuildInstruction, core::conformation::signals::LengthEvent const&>, boost::_bi::list2<boost::_bi::value<protocols::forge::build::BuildInstruction*>, boost::arg<1> > >, void, core::conformation::signals::LengthEvent>::invoke(boost::detail::function::function_buffer&, core::conformation::signals::LengthEvent) + 2984879
22  rosetta_4.20_x86_64-apple-darwin    0x00000001084b6ea2 protocols::multistage_rosetta_scripts::cluster::complex_type_name_for_cluster_metric(std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&) + 3828914
23  rosetta_4.20_x86_64-apple-darwin    0x00000001084c3226 protocols::multistage_rosetta_scripts::cluster::complex_type_name_for_cluster_metric(std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&) + 3878966
24  rosetta_4.20_x86_64-apple-darwin    0x00000001084c5a5f protocols::multistage_rosetta_scripts::cluster::complex_type_name_for_cluster_metric(std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&) + 3889263
25  rosetta_4.20_x86_64-apple-darwin    0x0000000107a5c128 rosetta_4.20_x86_64-apple-darwin + 24872
26  libdyld.dylib                       0x00007fff69f92cc9 start + 1
27  ???                                 0x000000000000002e 0x0 + 46
 ------------------------- End developer's backtrace -------------------------- 

</stderr_txt>
]]>
ID: 96709 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Sid Celery

Send message
Joined: 11 Feb 08
Posts: 1916
Credit: 35,478,949
RAC: 545
Message 96711 - Posted: 21 May 2020, 23:42:05 UTC - in response to Message 96685.  

Name: Junior_HalfRoid_design6_cart_COVID-19_SAVE_ALL_OUT_IGNORE_THE_REST_2nv3om7g_929581_20_0
Task 1184606782
Application version Rosetta v4.20 arm-android-linux-gnu

I reported very similar a few days before. I think it's simply a matter of these Junior_Halfroid tasks needing so much RAM - 1.3Gb-1.4Gb - and insufficient being available on a phone.

I cut my concurrent tasks from 3 to just 2 (having previously reduced from 4 to 3 on my 8-core phone) and everything's running ok now
ID: 96711 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1389
Credit: 13,693,695
RAC: 0
Message 96745 - Posted: 23 May 2020, 7:38:20 UTC

We seem to be getting an increasing number, and different types, of faulty Work Units.

rep1903_0008_symC_reordered_0004_propagated_0001_A_fold_SAVE_ALL_OUT_930187_769_1

<core_client_version>7.6.33</core_client_version>
<![CDATA[
<message>
WU download error: couldn't get input files:
<file_xfer_error>
  <file_name>rep1903_0008_symC_reordered_0004_propagated_0001_A_data.zip</file_name>
  <error_code>-200 (wrong size)</error_code>
</file_xfer_error>

</message>
]]>




rb_05_20_26255_25609_COVID-19_t000__0_C3_SAVE_ALL_OUT_IGNORE_THE_REST_938281_635_1

<core_client_version>7.6.33</core_client_version>
<![CDATA[
<message>
Incorrect function.
 (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe -run:protocol jd2_scripting @flags_rb_05_20_26255_25609_COVID-19_t000__0_C3_robetta -silent_gz -mute all -out:file:silent default.out -in:file:boinc_wu_zip input_rb_05_20_26255_25609_COVID-19_t000__0_C3_robetta.zip -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 2814337
Using database: database_357d5d93529_n_methylminirosetta_database

ERROR: Assertion `res2.is_bonded(res1)` failed.
ERROR:: Exit from: ......srccorescoringetablecount_pairCountPairFactory.cc line: 222
BOINC:: Error reading and gzipping output datafile: default.out
12:27:06 (6896): called boinc_finish(1)

</stderr_txt>
]]>




rb_05_20_26255_25609_COVID-19_t000__0_C3_SAVE_ALL_OUT_IGNORE_THE_REST_938281_1365_0

<core_client_version>7.6.22</core_client_version>
<![CDATA[
<message>
Incorrect function.
 (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe -run:protocol jd2_scripting @flags_rb_05_20_26255_25609_COVID-19_t000__0_C3_robetta -silent_gz -mute all -out:file:silent default.out -in:file:boinc_wu_zip input_rb_05_20_26255_25609_COVID-19_t000__0_C3_robetta.zip -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 2813607
Using database: database_357d5d93529_n_methylminirosetta_database

ERROR: Assertion `res2.is_bonded(res1)` failed.
ERROR:: Exit from: ......srccorescoringetablecount_pairCountPairFactory.cc line: 222
BOINC:: Error reading and gzipping output datafile: default.out
12:42:48 (8464): called boinc_finish(1)

</stderr_txt>
]]>




rb_05_21_26437_25844_ab_t000__robetta_cstwt_5.0_FT_IGNORE_THE_REST_07_06_938324_11_0

<core_client_version>7.6.22</core_client_version>
<![CDATA[
<message>
Incorrect function.
 (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe @rb_05_21_26437_25844_ab_t000__robetta_FLAGS -in::file::fasta t000_.fasta -jumps:pairing_file t000_.fasta.bbcontacts.jumps -jumps:random_sheets 1 -constraints::cst_file t000_.fasta.CB.cst -constraints:cst_weight 5.0 -constraints::cst_fa_file t000_.fasta.MIN.cst -constraints:cst_fa_weight 5.0 -in:file:boinc_wu_zip rb_05_21_26437_25844_ab_t000__robetta.zip -frag3 rb_05_21_26437_25844_ab_t000__robetta.200.3mers.index.gz -fragA rb_05_21_26437_25844_ab_t000__robetta.200.6mers.index.gz -fragB rb_05_21_26437_25844_ab_t000__robetta.200.7mers.index.gz -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 2780511
Using database: database_357d5d93529_n_methylminirosetta_database

[ ERROR ]: Caught exception:


File: C:cygwin64homeboinc4.17Rosettamainsourcesrccore/pack/dunbrack/SingleResidueDunbrackLibrary.hh:306
chi angle must be between -180 and 180: -nan(ind)
 ------------------------ Begin developer's backtrace ------------------------- 
BACKTRACE:
 ------------------------- End developer's backtrace -------------------------- 


AN INTERNAL ERROR HAS OCCURED. PLEASE SEE THE CONTENTS OF ROSETTA_CRASH.log FOR DETAILS.



</stderr_txt>
]]>




rb_05_21_26416_25821_ab_t000__robetta_cstwt_5.0_FT_IGNORE_THE_REST_03_07_938309_4_0

<core_client_version>7.6.22</core_client_version>
<![CDATA[
<message>
Incorrect function.
 (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe @rb_05_21_26416_25821_ab_t000__robetta_FLAGS -in::file::fasta t000_.fasta -jumps:pairing_file t000_.fasta.bbcontacts.jumps -jumps:random_sheets 1 1 1 -constraints::cst_file t000_.fasta.CB.cst -constraints:cst_weight 5.0 -constraints::cst_fa_file t000_.fasta.MIN.cst -constraints:cst_fa_weight 5.0 -in:file:boinc_wu_zip rb_05_21_26416_25821_ab_t000__robetta.zip -frag3 rb_05_21_26416_25821_ab_t000__robetta.200.3mers.index.gz -fragA rb_05_21_26416_25821_ab_t000__robetta.200.7mers.index.gz -fragB rb_05_21_26416_25821_ab_t000__robetta.200.3mers.index.gz -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 2786310
Using database: database_357d5d93529_n_methylminirosetta_database

[ ERROR ]: Caught exception:


File: C:cygwin64homeboinc4.17Rosettamainsourcesrccore/pack/dunbrack/SingleResidueDunbrackLibrary.hh:306
chi angle must be between -180 and 180: -nan(ind)
 ------------------------ Begin developer's backtrace ------------------------- 
BACKTRACE:
 ------------------------- End developer's backtrace -------------------------- 


AN INTERNAL ERROR HAS OCCURED. PLEASE SEE THE CONTENTS OF ROSETTA_CRASH.log FOR DETAILS.



</stderr_txt>
]]>

Grant
Darwin NT
ID: 96745 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
James W

Send message
Joined: 25 Nov 12
Posts: 130
Credit: 1,766,254
RAC: 0
Message 96759 - Posted: 24 May 2020, 7:23:15 UTC

Name: 3cl_10aa_AVL_3CL_AVLstub_00178_288_extract_B_SAVE_ALL_OUT_938495_218_1
Application: Rosetta v4.20 windows_x86_64
Device: 1759960
Task: 1187573625. WU: 1066188850
Status: Error while computing.
Errors: Too many errors (may have bug) Too many total results.
Exit status: -1073741819 (0xC0000005) STATUS_ACCESS_VIOLATION
Stderr output:
(unknown error) - exit code -1073741819 (0xc0000005)
Unhandled Exception Detected...
Reason: Access Violation (0xc0000005) at address 0x0000000142F21D48

Engaging BOINC Windows Runtime Debugger...
Note that my task was the 2nd for the WU and both tasks for this WU failed for the same reason. Buggy task(s)?
ID: 96759 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
James W

Send message
Joined: 25 Nov 12
Posts: 130
Credit: 1,766,254
RAC: 0
Message 96760 - Posted: 24 May 2020, 7:44:58 UTC - in response to Message 96745.  

We seem to be getting an increasing number, and different types, of faulty Work Units.

Name: rb_05_20_26255_25609_COVID-19_t000__0_C3_SAVE_ALL_OUT_IGNORE_THE_REST_938281_9813_0
Application: Rosetta v4.20 windows_x86_64
Device: 3710630
Task: 1187911420. WU: 1066837911
Status: Completed and validated.
Exit status: 0 (0x00000000)
Stderr output:
ERROR: Assertion `res2.is_bonded(res1)` failed.
ERROR:: Exit from: ......srccorescoringetablecount_pairCountPairFactory.cc line: 222
23:37:42 (4304): called boinc_finish(0)
Errored after crunching for 1+ hour. Gladly rec'd credit for time working on task.
ID: 96760 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
James W

Send message
Joined: 25 Nov 12
Posts: 130
Credit: 1,766,254
RAC: 0
Message 96805 - Posted: 27 May 2020, 4:09:37 UTC

Name: 3cl_10aa_AVL_3CL_AVLstub_00022_106_extract_B_SAVE_ALL_OUT_938362_90_1
Application: Rosetta v4.20 windows_x86_64
Device: 3710630
Task: 1189470473. WU: 1066074286
Status: Error while computing.
Errors: Too many errors (may have bug) Too many total results.
Exit status: -1073741819 (0xC0000005) STATUS_ACCESS_VIOLATION
Stderr output:
(unknown error) - exit code -1073741819 (0xc0000005)
Unhandled Exception Detected...
- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x0000000000000000

Engaging BOINC Windows Runtime Debugger...
I posted this same error couple days ago for another 3cl_10aa_AVL**** WU. Mercifully this task only ran for 36 seconds before erroring out. Note the 1st task for WU was aborted by user at deadline!
ID: 96805 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1389
Credit: 13,693,695
RAC: 0
Message 96806 - Posted: 27 May 2020, 10:31:00 UTC

A new type of Work Unit, a new error.

denovo_4kyz_xtal_fold_SAVE_ALL_OUT_939900_129_0

<core_client_version>7.6.22</core_client_version>
<![CDATA[
<message>
(unknown error) - exit code -1073741819 (0xc0000005)
</message>
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe -abinitio::fastrelax 1 -ex2aro 1 -frag3 00001.200.3mers -in:file:native 00001.pdb -silent_gz 1 -frag9 00001.200.9mers -out:file:silent default.out -ex1 1 -abinitio::rsd_wt_loop 0.5 -relax::default_repeats 15 -abinitio::use_filters false -abinitio::increase_cycles 10 -abinitio::rsd_wt_helix 0.5 -abinitio::rg_reweight 0.5 -in:file:boinc_wu_zip denovo_4kyz_xtal_data.zip -out:file:silent default.out -silent_gz -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 3945483
Using database: database_357d5d93529_n_methylminirosetta_database


Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x0000000000000004 

Engaging BOINC Windows Runtime Debugger...



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


BOINC Windows Runtime Debugger Version 7.9.0


Dump Timestamp    : 05/27/20 05:32:12
Install Directory : C:Program FilesBOINC
Data Directory    : C:ProgramDataBOINC
Project Symstore  : https://boinc.bakerlab.org/rosetta/symstore
LoadLibraryA( C:ProgramDataBOINCdbghelp.dll ): GetLastError = 126
Loaded Library    : dbghelp.dll
LoadLibraryA( C:ProgramDataBOINCsymsrv.dll ): GetLastError = 126
LoadLibraryA( symsrv.dll ): GetLastError = 126
LoadLibraryA( C:ProgramDataBOINCsrcsrv.dll ): GetLastError = 126
LoadLibraryA( srcsrv.dll ): GetLastError = 126
LoadLibraryA( C:ProgramDataBOINCversion.dll ): GetLastError = 126
Loaded Library    : version.dll
Debugger Engine   : 4.0.5.0
Symbol Search Path: C:ProgramDataBOINCslots10;C:ProgramDataBOINCprojectsboinc.bakerlab.org_rosetta;srv*C:ProgramDataBOINCprojectsboinc.bakerlab.org_rosettasymbols*http://msdl.microsoft.com/download/symbols;srv*C:ProgramDataBOINCprojectsboinc.bakerlab.org_rosettasymbols*https://boinc.bakerlab.org/rosetta/symstore


ModLoad: 00000000c4020000 00000000057ef000 C:ProgramDataBOINCprojectsboinc.bakerlab.org_rosettarosetta_4.20_windows_x86_64.exe (-exported- Symbols Loaded)
    Linked PDB Filename   : C:cygwin64homeboinc4.17RosettamainsourceideVisualStudiox64BoincReleaserosetta_4.20_windows_x86_64.pdb

ModLoad: 00000000dd860000 00000000001f0000 C:WINDOWSSYSTEM32ntdll.dll (6.2.18362.778) (-exported- Symbols Loaded)
    Linked PDB Filename   : ntdll.pdb
    File Version          : 10.0.18362.329 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.329

ModLoad: 00000000dc7d0000 00000000000b2000 C:WINDOWSSystem32KERNEL32.DLL (6.2.18362.778) (-exported- Symbols Loaded)
    Linked PDB Filename   : kernel32.pdb
    File Version          : 10.0.18362.329 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.329

ModLoad: 00000000dace0000 00000000002a3000 C:WINDOWSSystem32KERNELBASE.dll (6.2.18362.778) (-exported- Symbols Loaded)
    Linked PDB Filename   : kernelbase.pdb
    File Version          : 10.0.18362.329 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.329

ModLoad: 00000000dc480000 000000000006f000 C:WINDOWSSystem32WS2_32.dll (6.2.18362.387) (-exported- Symbols Loaded)
    Linked PDB Filename   : ws2_32.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000dbc00000 0000000000120000 C:WINDOWSSystem32RPCRT4.dll (6.2.18362.628) (-exported- Symbols Loaded)
    Linked PDB Filename   : rpcrt4.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000dc500000 0000000000194000 C:WINDOWSSystem32USER32.dll (6.2.18362.778) (-exported- Symbols Loaded)
    Linked PDB Filename   : user32.pdb
    File Version          : 10.0.17763.802 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.17763.802

ModLoad: 00000000da7f0000 0000000000021000 C:WINDOWSSystem32win32u.dll (6.2.18362.778) (-exported- Symbols Loaded)
    Linked PDB Filename   : win32u.pdb
    File Version          : 10.0.18362.778 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.778

ModLoad: 00000000dc700000 0000000000026000 C:WINDOWSSystem32GDI32.dll (6.2.18362.1) (-exported- Symbols Loaded)
    Linked PDB Filename   : gdi32.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000dab10000 0000000000194000 C:WINDOWSSystem32gdi32full.dll (6.2.18362.778) (-exported- Symbols Loaded)
    Linked PDB Filename   : gdi32full.pdb
    File Version          : 10.0.18362.778 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.778

ModLoad: 00000000daa50000 000000000009e000 C:WINDOWSSystem32msvcp_win.dll (6.2.18362.387) (-exported- Symbols Loaded)
    Linked PDB Filename   : msvcp_win.pdb
    File Version          : 10.0.18362.387 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.387

ModLoad: 00000000db090000 00000000000fa000 C:WINDOWSSystem32ucrtbase.dll (6.2.18362.387) (-exported- Symbols Loaded)
    Linked PDB Filename   : ucrtbase.pdb
    File Version          : 10.0.18362.387 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.387

ModLoad: 00000000db910000 00000000000a3000 C:WINDOWSSystem32ADVAPI32.dll (6.2.18362.752) (-exported- Symbols Loaded)
    Linked PDB Filename   : advapi32.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000dba20000 000000000009e000 C:WINDOWSSystem32msvcrt.dll (7.0.18362.1) (-exported- Symbols Loaded)
    Linked PDB Filename   : msvcrt.pdb
    File Version          : 7.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 7.0.18362.1

ModLoad: 00000000dc730000 0000000000097000 C:WINDOWSSystem32sechost.dll (6.2.18362.693) (-exported- Symbols Loaded)
    Linked PDB Filename   : sechost.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000dd640000 000000000002e000 C:WINDOWSSystem32IMM32.DLL (6.2.18362.387) (-exported- Symbols Loaded)
    Linked PDB Filename   : imm32.pdb
    File Version          : 10.0.18362.387 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.387

ModLoad: 00000000da730000 0000000000011000 C:WINDOWSSystem32kernel.appcore.dll (6.2.18362.1) (-exported- Symbols Loaded)
    Linked PDB Filename   : Kernel.Appcore.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000d9780000 0000000000031000 C:WINDOWSSYSTEM32ntmarta.dll (6.2.18362.1) (-exported- Symbols Loaded)
    Linked PDB Filename   : ntmarta.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000d5c80000 00000000001f4000 C:WINDOWSSYSTEM32dbghelp.dll (6.2.18362.1) (-exported- Symbols Loaded)
    Linked PDB Filename   : dbghelp.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1

ModLoad: 00000000da9d0000 0000000000080000 C:WINDOWSSystem32bcryptPrimitives.dll (6.2.18362.295) (-exported- Symbols Loaded)
    Linked PDB Filename   : bcryptprimitives.pdb
    File Version          : 10.0.18362.295 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.295

ModLoad: 00000000d65b0000 000000000000a000 C:WINDOWSSYSTEM32version.dll (6.2.18362.1) (-exported- Symbols Loaded)
    Linked PDB Filename   : version.pdb
    File Version          : 10.0.18362.1 (WinBuild.160101.0800)
    Company Name          : Microsoft Corporation
    Product Name          : Microsoft&#174; Windows&#174; Operating System
    Product Version       : 10.0.18362.1



*** Dump of the Process Statistics: ***

- I/O Operations Counters -
Read: 5706, Write: 1564, Other 13734

- I/O Transfers Counters -
Read: 21054667, Write: 37171998, Other 9374

- Paged Pool Usage -
QuotaPagedPoolUsage: 317448, QuotaPeakPagedPoolUsage: 317576
QuotaNonPagedPoolUsage: 6792, QuotaPeakNonPagedPoolUsage: 7352

- Virtual Memory Usage -
VirtualSize: 88117248, PeakVirtualSize: 895655936

- Pagefile Usage -
PagefileUsage: 88117248, PeakPagefileUsage: 101171200

- Working Set Size -
WorkingSetSize: 108032000, PeakWorkingSetSize: 119652352, PageFaultCount: 33782

*** Dump of thread ID 1660 (state: Initialized): ***

- Information -
Status: Base Priority: Normal, Priority: Normal, , Kernel Time: 0.000000, User Time: 0.000000, Wait Time: 0.000000

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x0000000000000004 

- Registers -
rax=000000000000003a rbx=0000000035a15ff0 rcx=0000000036419ac0 rdx=00000000364f9bf8 rsi=000000000000000b rdi=0000000036419ac0
r8=000000000000003a r9=0000000000000421 r10=00000000c7bc6e80 r11=00000000fef45000 r12=00000000c4020000 r13=00000000fef5f710
r14=00000000fef45740 r15=000000000048b215 rip=0000000000000004 rsp=00000000fef45078 rbp=0000000000000000
cs=0033  ss=002b  ds=002b  es=002b  fs=0053  gs=002b             efl=00010206

- Callstack -
ChildEBP RetAddr  Args to Child
fef45070 c44f831c 00000000 c7bc6d60 c7bc6e80 c7babe78 !+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = '00000004'
fef450a0 c44b935d 35a15ff0 fef45140 fef458c0 c44a355d rosetta_4.20_windows_x86_64!xmlParserInputRead+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c44f831c'
fef450d0 c7627f10 c8510150 fef5f710 00000000 c44a3265 rosetta_4.20_windows_x86_64!xmlParserInputRead+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c44b935d'
fef45100 c44a39e8 fef45db0 14c96b7d fef45708 fef45790 rosetta_4.20_windows_x86_64!xmlValidateNotationDecl+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c7627f10'
fef45170 dd9011cf 00000000 fef456f0 fef45db0 fef45db0 rosetta_4.20_windows_x86_64!xmlParserInputRead+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c44a39e8'
fef451a0 dd8ca209 00000001 c4020000 00000000 c95ba32c ntdll!__chkstk+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'dd9011cf'
fef458b0 dd8ffe3e 00000020 00000000 c7c9a450 00000003 ntdll!RtlRaiseException+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'dd8ca209'
fef46060 c4763e2b fffffffe 39d8fb08 ffffffff c47718c5 ntdll!KiUserExceptionDispatcher+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'dd8ffe3e'
fef460b0 c4773690 c7c9a3a0 39d8f860 c7c9a3a0 fef461a9 rosetta_4.20_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4763e2b'
fef461e0 c488a08d 3973b6a8 3a094d80 39d8f860 3a094d80 rosetta_4.20_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4773690'
fef46d90 c4824b6c 3924c160 dd89b997 3b960000 00000000 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c488a08d'
fef46f90 c482488e fef47078 00000000 fef47260 00000000 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4824b6c'
fef470f0 c4783da1 fef47268 00000000 35a15240 fef47330 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c482488e'
fef474b0 c4789f08 fef47800 fef47800 fef47800 00000000 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4783da1'
fef47b00 c47884db 360ebf30 fef47b60 35f6f5b0 35f6f5b0 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4789f08'
fef47c60 c46f1fb7 00000000 fef47d70 35f6f5b0 fef47f70 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c47884db'
fef47dd0 c46f57a6 3b960000 c4495190 36021cf0 36021cf0 rosetta_4.20_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c46f1fb7'
fef47e40 c46f56cc fef48148 fef47fb9 fef48148 35f6f5b0 rosetta_4.20_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c46f57a6'
fef47ef0 c47bb6f5 fef48148 dd8a07bd 00000010 c44aa835 rosetta_4.20_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c46f56cc'
fef48010 c47ba592 fef48238 fef48148 fef48490 00000000 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c47bb6f5'
fef480e0 c47bad06 00000000 00000000 39d006d8 3a0be850 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c47ba592'
fef48280 c4c1ea5d 39d005f0 39d006d8 3af2f501 00000000 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c47bad06'
fef488d0 c4c12f7a fef48910 fef489d0 fef489d0 00000000 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4c1ea5d'
fef48930 c4e2cc70 fef489d0 fef490f8 36021cf0 00000000 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4c12f7a'
fef490c0 c4e2c6e4 3a0bcdc0 3a092e60 c9495cc0 c44975a6 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4e2cc70'
fef49120 c4e3603e fef49210 3a0bcaf0 fef49230 fef49980 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4e2c6e4'
fef498a0 c4e356d4 c032d687 c032d9b7 c9407f70 c4e56cb4 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4e3603e'
fef49930 c4e3578e 00000005 fef49ed8 35fb72d0 00000001 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4e356d4'
fef49ad0 c44a081d 361a8700 361a8700 35fb72d0 35a17601 rosetta_4.20_windows_x86_64!cppdb::backend::statement::cache+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c4e3578e'
fef5f700 c44ab215 00000000 00000000 c93cccf8 00000000 rosetta_4.20_windows_x86_64!xmlParserInputRead+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c44a081d'
fef5f740 dc7e7bd4 00000000 00000000 00000000 00000000 rosetta_4.20_windows_x86_64!xmlParserInputRead+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'c44ab215'
fef5f770 dd8cce51 00000000 00000000 00000000 00000000 KERNEL32!BaseThreadInitThunk+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'dc7e7bd4'
fef5f7f0 00000000 00000000 00000000 00000000 00000000 ntdll!RtlUserThreadStart+0x0 SymFromAddr(): GetLastError = '126'  SymGetModuleInfo(): GetLastError = '126' Address = 'dd8cce51'

*** Dump of thread ID 32767 (state: Initialized): ***

- Information -
Status: Base Priority: Normal, Priority: Unknown, , Kernel Time: 6.000000, User Time: 0.000000, Wait Time: 2166752000.000000

- Registers -
rax=0000000000000000 rbx=0000000000000000 rcx=0000000000000000 rdx=0000000000000000 rsi=0000000000000000 rdi=0000000000000000
r8=0000000000000000 r9=0000000000000000 r10=0000000000000000 r11=0000000000000000 r12=0000000000000000 r13=0000000000000000
r14=0000000000000000 r15=0000000000000000 rip=0000000000000000 rsp=0000000000000000 rbp=0000000000000000
cs=0000  ss=0000  ds=0000  es=0000  fs=0000  gs=0000             efl=00000000

- Callstack -
ChildEBP RetAddr  Args to Child
(-nosymbols- PC == 0)
00000000 00000000 00000000 00000000 00000000 00000000 !+0x0 

*** Dump of thread ID 30815128 (state: Unknown): ***

- Information -
Status: Base Priority: Normal, Priority: Unknown, , Kernel Time: 17179869184.000000, User Time: 21474836480.000000, Wait Time: 0.000000

- Registers -
rax=0000000000000000 rbx=0000000000000000 rcx=0000000000000000 rdx=0000000000000000 rsi=0000000000000000 rdi=0000000000000000
r8=0000000000000000 r9=0000000000000000 r10=0000000000000000 r11=0000000000000000 r12=0000000000000000 r13=0000000000000000
r14=0000000000000000 r15=0000000000000000 rip=0000000000000000 rsp=0000000000000000 rbp=0000000000000000
cs=0000  ss=0000  ds=0000  es=0000  fs=0000  gs=0000             efl=00000000

- Callstack -
ChildEBP RetAddr  Args to Child
(-nosymbols- PC == 0)
00000000 00000000 00000000 00000000 00000000 00000000 !+0x0 


*** Debug Message Dump ****


*** Foreground Window Data ***
    Window Name      : 
    Window Class     : 
    Window Process ID: 0
    Window Thread ID : 0

Exiting...

</stderr_txt>
]]>

Grant
Darwin NT
ID: 96806 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile [VENETO] boboviz

Send message
Joined: 1 Dec 05
Posts: 1687
Credit: 6,629,809
RAC: 81
Message 96809 - Posted: 27 May 2020, 13:07:46 UTC - in response to Message 96806.  

A new type of Work Unit, a new error.

Same here, "denovo" wus memory errors...
ID: 96809 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mad_Max

Send message
Joined: 31 Dec 09
Posts: 206
Credit: 19,454,483
RAC: 814
Message 96930 - Posted: 30 May 2020, 22:57:03 UTC - in response to Message 95667.  
Last modified: 30 May 2020, 23:17:51 UTC

Regarding WinXP and memory:
I'm runnign Vista x86 and it does Rosetta work OK. So, definitely not a 32-bit restriction to available memory.
Most probably app was built against new MS SDK. And they broke (they do this regularly) process creation function for old OS. PErhaps app should be built with XP-compatibility flag turned ON.

And regarding "unpatched" and so on. Clear your minds from marketing bul...t.
Talented hacker will enter in modern Win10 just as easy :)
On each old closed backdor each new update opens dozen new ones...
Old OSes just never had exposed SO many network services as modern OSes do.

For Win XP reason why all Rosetta WU is fails at the start - it can not extract files stored in zip files.

It produce errors like this
unzip: cannot find either ../../projects/boinc.bakerlab.org_rosetta/rep445_0040_symC_reordered_0001_propagated_0001_A_v7_data.zip or ../../projects/boinc.bakerlab.org_rosetta/rep445_0040_symC_reordered_0001_propagated_0001_A_v7_data.zip.zip.

unzip: cannot find either E:/Boinc/Data/projects/boinc.bakerlab.org_rosetta/database_357d5d93529_n_methyl.zip or E:/Boinc/Data/projects/boinc.bakerlab.org_rosetta/database_357d5d93529_n_methyl.zip.zip.
Extracting in slot directory: minirosetta_database.zip
unzip: cannot find either ../../projects/boinc.bakerlab.org_rosetta/database_357d5d93529_n_methyl.zip or ../../projects/boinc.bakerlab.org_rosetta/database_357d5d93529_n_methyl.zip.zip.
Using database: minirosetta_database
Cannot find database: minirosetta_database


While all files mentioned in errors actually present and undamaged - can open and extract them manually, archive integrity checks pass OK .
Probable R@H (or never version of BOINC ?) try to use unzip buit-in in Windows 7 and later only.

Example all tasks from this machine: https://boinc.bakerlab.org/rosetta/results.php?hostid=1252064

If admins not gonna fix it and drop WinXP support instead (which is quite understandable - i will run WCG an all WinXp machines then - it works just fine on WinXP ) then disable work distributions for this OS and give a proper error when such clients contact server for job..
Currently it is just waste of resources - server sent tasks they downloaded, all failed, reported to server, get more tasks, fails, etc.
Only limited by hitting WU daily quota.

P.S.
Still use WinXP on one of computers for all last years which running 100% online (always connected) and for active web browsing too (FireFox 52.9). No single virus or security breach/issue for lat 6 (six) or 7 years! While have had some security issues on never Win7 and Win 8.1 machines during this period and in the same home network!. I guess it just not worth for hackers and virus makers to "support" XP too lol . All security breaches stopped about same time WinXp official support is dropped by Microsoft.

Plan to use it for at least 1 or even 2 years more.
ID: 96930 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mad_Max

Send message
Joined: 31 Dec 09
Posts: 206
Credit: 19,454,483
RAC: 814
Message 96932 - Posted: 30 May 2020, 22:59:19 UTC - in response to Message 95678.  

I updated the rosetta app version to 4.20 for the arm, android, and mac platforms. I will update the remaining platforms in the next day or so.

Please post issues regarding this updated app version here.

This update includes:

1. extraction of the Rosetta database into the project directory with all following jobs reading from the same database rather than extracting into the slot directory for every job. This significantly reduces the disk usage per job.
2. checkpointing in the Rosetta comparative modeling protocol. This should significantly reduce wasted cpu time if jobs are preempted often, particularly for jobs that take a long time to produce models.


Finally!
Crunchers suggested and waited for this upgrade for so many years!
And it finally here and works fine.
Thanks!
ID: 96932 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Sid Celery

Send message
Joined: 11 Feb 08
Posts: 1916
Credit: 35,478,949
RAC: 545
Message 97217 - Posted: 4 Jun 2020, 16:01:54 UTC

Tasks beginning 12V3AL seem to target a runtime of only half the default - often less.
This kind of thing has happened before - some incorrect setting attributed to that task family?
Not a problem - they run successfully under their own terms. Just short.

12V3AL_2_method_2_12mer_design_00119_009256_017904_0001_SAVE_ALL_OUT_941800_453_0
<core_client_version>7.16.7</core_client_version>
<![CDATA[
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe @12V3AL_2_method_2_12mer_design_00119_009256_017904_0001.flags -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 2020709
Using database: database_357d5d93529_n_methylminirosetta_database
======================================================
DONE :: 1 starting structures 10567.2 cpu seconds
This process generated 31 decoys from 31 attempts
======================================================
BOINC :: WS_max 0
16:36:36 (14064): called boinc_finish(0)

</stderr_txt>
]]>

Lots of other examples
ID: 97217 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
jackielan2000

Send message
Joined: 5 Sep 06
Posts: 13
Credit: 14,208
RAC: 0
Message 97219 - Posted: 4 Jun 2020, 17:34:03 UTC - in response to Message 88767.  

Please post issues regarding Rosetta and Rosetta android 4.1+ application versions here.

No problem with the Android version, just the system requirement is a too high, 2GB of free RAM? That means at least I need to have a device with 4GB RAM. Of course u can say nowadays Android phones come with at least 4GB RAM, but I'm not gonna use a high end phone for crunching 24/7. I'm not out of my mind yet.

I have 1 phone with 4GB RAM, which I'm using for WCG's OPN. I also have 3 phones with 3GB RAMs but none of them can run Rosetta because none of them would have 2GB FREE. All 4 TV-boxes (Android 4.2.2), my major force to conquer WCG SCC, have 1GB RAMs. I said many many times that Android device is the fastest growing computational power in the world. 1.6Billion Android devices were manufactured in 2019 alone. However, if you can't scale down ur work unit and lower the system requirement, you are not gonna get anywhere with Android.
ID: 97219 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Brian Nixon

Send message
Joined: 12 Apr 20
Posts: 293
Credit: 8,432,366
RAC: 0
Message 97227 - Posted: 4 Jun 2020, 19:21:05 UTC - in response to Message 97217.  

Sid Celery wrote:
Tasks beginning 12V3AL seem to target a runtime of only half the default - often less.
I’ve been seeing this with the 12V tasks, too. I just leave ’em be…
ID: 97227 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Combat Marmot

Send message
Joined: 16 Jan 07
Posts: 1
Credit: 2,563,112
RAC: 73
Message 97238 - Posted: 5 Jun 2020, 6:07:50 UTC

I used to be able to run a number of Rosetta tasks in parallel (Ryzen 3600 with 16 GB of RAM) but recently I have found that I have to force a maximum of 2 in parallel (through the config xml file using this approach https://boinc.berkeley.edu/forum_thread.php?id=12710&postid=89659#89659 ).

Otherwise I received Rosetta errors from Win 10 "the memory address could not be read". According to task manager, about 8 GB was available at the time. Unfortunately, the error also caused a number of other WUs from other projects to fail. Memtest86 reports no errors, so I am assuming for the moment that there is some issue with memory allocation within Rosetta.

<core_client_version>7.16.5</core_client_version>
<![CDATA[
<message>
(unknown error) - exit code -1073741523 (0xc000012d)</message>
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe -abinitio::fastrelax 1 -ex2aro 1 -frag3 00001.200.3mers.index -in:file:native 00001.pdb -silent_gz 1 -frag9 00001.200.9mers.index -out:file:silent default.out -ex1 1 -abinitio::rsd_wt_loop 0.5 -relax::default_repeats 5 -abinitio::use_filters false -abinitio::increase_cycles 10 -abinitio::rsd_wt_helix 0.5 -beta 1 -abinitio::rg_reweight 0.5 -in:file:boinc_wu_zip 5433ffccd42e259d46a3731babedf609_data.zip -out:file:silent default.out -silent_gz -mute all -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 3331593
Using database: database_357d5d93529_n_methylminirosetta_database

</stderr_txt>
]]>


I'd like to support the aims of project with more cores, but it doesn't seem possible at this time.
ID: 97238 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1389
Credit: 13,693,695
RAC: 0
Message 97240 - Posted: 5 Jun 2020, 7:48:44 UTC - in response to Message 97238.  

I used to be able to run a number of Rosetta tasks in parallel (Ryzen 3600 with 16 GB of RAM) but recently I have found that I have to force a maximum of 2 in parallel (through the config xml file using this approach https://boinc.berkeley.edu/forum_thread.php?id=12710&postid=89659#89659 ).

Otherwise I received Rosetta errors from Win 10 "the memory address could not be read". According to task manager, about 8 GB was available at the time. Unfortunately, the error also caused a number of other WUs from other projects to fail. Memtest86 reports no errors, so I am assuming for the moment that there is some issue with memory allocation within Rosetta.
Another system was able to process the same Work Unit without any issues.
Grant
Darwin NT
ID: 97240 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Previous · 1 . . . 13 · 14 · 15 · 16 · 17 · 18 · 19 . . . 33 · Next

Message boards : Number crunching : Rosetta 4.1+ and 4.2+



©2023 University of Washington
https://www.bakerlab.org