Rosetta 4.23

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admindub
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Message 7307 - Posted: 10 Mar 2023, 22:07:00 UTC

Please post issues with Rosetta 4.23 here.
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Profile [VENETO] boboviz

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Message 7309 - Posted: 14 Mar 2023, 11:11:01 UTC - in response to Message 7307.  
Last modified: 14 Mar 2023, 11:14:57 UTC

Please post issues with Rosetta 4.23 here.


What's new with this version??

P.S. We need more wus to test this app....
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Message 7310 - Posted: 16 Mar 2023, 9:49:24 UTC - in response to Message 7309.  

What's new with this version??

Uh, i had't seen the home page.
Great the introduction of new functionalities!!

P.S. We need more wus to test this app....

Still no wus....
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Dirk Broer

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Message 7311 - Posted: 18 Mar 2023, 1:13:51 UTC

Where's the Wu's?
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Message 7312 - Posted: 21 Mar 2023, 13:36:16 UTC - in response to Message 7311.  

Where's the Wu's?


Maybe they are shy wus...
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AnandBhat

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Message 7313 - Posted: 23 Mar 2023, 4:12:25 UTC

I've had received about 175 6.23 workunits and about 125 of these failed to complete (failed roughly a minute into computation) while the remaining 50 completed but apparently failed to validate.
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Message 7314 - Posted: 23 Mar 2023, 5:24:01 UTC - in response to Message 7313.  

My wus have this message at the end of computation (on Win11):
Task nmet_SR2_nmet_test_SAVE_ALL_OUT_16844_112_0 exited with zero status but no 'finished' file
If this happens repeatedly you may need to reset the project.
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Message 7315 - Posted: 23 Mar 2023, 5:24:40 UTC - in response to Message 7313.  

I've had received about 175 6.23 workunits and about 125 of these failed to complete (failed roughly a minute into computation) while the remaining 50 completed but apparently failed to validate.


You have to make public your pc to see error log...
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Message 7316 - Posted: 23 Mar 2023, 6:42:01 UTC - in response to Message 7313.  

the remaining 50 completed but apparently failed to validate.


Is like this failure to validate??
<stderr_txt>
06:31:51 (2224): Can't set up shared mem: -1. Will run in standalone mode.
command: projects/ralph.bakerlab.org/rosetta_4.23_windows_x86_64.exe @nmet_SR2_nmet_test.flags -nstruct 10000 -cpu_run_time 3600 -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 3754146
Extracting in slot directory: minirosetta_database.zip
Using database: database
======================================================
DONE :: 1 starting structures 3583.98 cpu seconds
This process generated 191 decoys from 191 attempts
======================================================
BOINC :: WS_max 0

BOINC :: Watchdog shutting down...
07:33:46 (2224): called boinc_finish(0)

</stderr_txt>
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fzs600

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Message 7317 - Posted: 23 Mar 2023, 7:04:14 UTC - in response to Message 7316.  

État: Tous (158) · En cours (68) · Validation en attente (0) · Validation non concluante (0) · Valide (0) · Invalide (60) · Erreur (30)
Application: All (158) · Rosetta (158) · rosetta python projects (0)


<core_client_version>7.20.2</core_client_version>
<![CDATA[
<stderr_txt>
04:40:47 (8468): Can't set up shared mem: -1. Will run in standalone mode.
command: projects/ralph.bakerlab.org/rosetta_4.23_windows_x86_64.exe @nmet_SR2_nmet_test.flags -nstruct 10000 -cpu_run_time 3600 -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 3754007
Extracting in slot directory: minirosetta_database.zip
Using database: database
======================================================
DONE :: 1 starting structures 7175.84 cpu seconds
This process generated 240 decoys from 240 attempts
======================================================
BOINC :: WS_max 0

BOINC :: Watchdog shutting down...
06:54:46 (8468): called boinc_finish(0)

</stderr_txt>
]]>
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Profile [VENETO] boboviz

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Message 7318 - Posted: 23 Mar 2023, 7:58:20 UTC
Last modified: 23 Mar 2023, 7:59:15 UTC

Some notes:
- nmet2_SR2_ has inconclusive validation (and, sometimes restarts after arrived at conclusion time)

- ralph_SR_hallucinated also inconclusive validation, similar to nmet2_SR2

- test_GALigandDocking_Ralph all errors at the end of calculation:
======================================================
DONE :: 1 starting structures 3665.38 cpu seconds
This process generated 1 decoys from 1 attempts
======================================================
BOINC :: WS_max 0

BOINC :: Watchdog shutting down...
08:52:48 (6620): called boinc_finish(0)

</stderr_txt>
<message>upload failure: <file_xfer_error>
<file_name>test_GALigandDocking_Ralph_2_16846_899_1_r1175532177_0</file_name>
<error_code>-240 (stat() failed)</error_code>
</file_xfer_error>
</message>


Seems there is a lot of work to do for this app....
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Fardringle

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Message 7319 - Posted: 24 Mar 2023, 14:13:05 UTC

All of the tasks that I received for this app say that they completed successfully, but had a 100% validation failure.

https://ralph.bakerlab.org/results.php?userid=717
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Profile [VENETO] boboviz

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Message 7320 - Posted: 26 Mar 2023, 6:02:50 UTC

5419751

<message>
(unknown error) - exit code 3221225477 (0xc0000005)</message>
<stderr_txt>
07:55:33 (3956): Can't set up shared mem: -1. Will run in standalone mode.
command: projects/ralph.bakerlab.org/rosetta_4.23_windows_x86_64.exe @nmet_SR1_design7.2.flags -nstruct 10000 -cpu_run_time 3600 -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 3753340
Extracting in slot directory: minirosetta_database.zip
Using database: database


Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x000001C8A74BD830

Engaging BOINC Windows Runtime Debugger...
- Callstack -
ChildEBP RetAddr Args to Child
c8345bf0 c2d2438c 00000000 c4b12760 c4b12880 00000000 !+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'a74bd830'
c8345c20 c2d98d32 a67f69b0 c8345cc0 c2d667ac 00000000 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2d2438c'
c8345c50 c475fefe c521a8a0 c835f710 00000000 00000001 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2d98d32'
c8345c80 c2d69b38 c5930334 c1130000 c8345d70 56f00e7b rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c475fefe'
c8345cf0 56f7241f 00000000 c8346270 c8346930 00000000 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2d69b38'
c8345d20 56f214a4 00000000 c8346270 c8346930 00000000 ntdll!__chkstk+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '56f7241f'
c8346430 56f70f4e a6730000 56efb86b c4b37558 00000001 ntdll!RtlRaiseException+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '56f214a4'
c8346b40 c1760cb1 7efb99c5 a9762498 a9762f98 ffffffff ntdll!KiUserExceptionDispatcher+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '56f70f4e'
c8346b70 c2e25775 00000000 ab1139d0 c4b374a8 aac5bcf0 rosetta_4.23_windows_x86_64!cppdb::backend::driver::connect+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c1760cb1'
c8346c90 c2fefc36 a9762498 c48a1430 00000003 a9762198 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2e25775'
c8347360 c2fe93db 00000020 a6730cc0 c83477f0 00000000 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2fefc36'
c8347560 c2fe90f7 00000000 c8347670 c8347738 00000000 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2fe93db'
c83476b0 c2fb1161 00000000 c83477c0 a6ddf710 00000001 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2fe90f7'
c8347a70 c2fb89e2 00000000 00000000 00000000 a6ddf8c0 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2fb1161'
c8348090 c2fb66c1 c83482e8 00000003 a6ddf710 00000003 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2fb89e2'
c83481f0 c2ea616e a6deb870 c8348300 a6deb870 c8348498 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2fb66c1'
c8348340 c2ea9d96 5f626400 c1698da1 a6ddf710 a6ddf710 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2ea616e'
c83483b0 c2ea9d06 a6deb870 c8348498 00000000 a6deb870 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2ea9d96'
c8348450 c2e3005e 00000000 00000000 c4923ab8 c4923ab8 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2ea9d06'
c8348550 c2e2f796 00000000 c4923ab8 00000000 a9cf6330 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2e3005e'
c8348740 c19030d9 c83487e0 c83487e0 00000401 a9cf6330 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2e2f796'
c8348a30 c19066fb 00000000 c8348b40 00000401 ba2e8ba3 rosetta_4.23_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c19030d9'
c8348df0 c18fd7fc 00000050 00000000 ffffffff 00000008 rosetta_4.23_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c19066fb'
c8348e90 c1b7ba59 c8348f40 a6ddf710 c8348fa0 c8349670 rosetta_4.23_windows_x86_64!cppdb::session::is_open+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c18fd7fc'
c8349640 c1b7b4bb c8349750 c8349e20 aaea0320 c1910895 rosetta_4.23_windows_x86_64!cppdb::atomic_counter::atomic_counter+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c1b7ba59'
c8349690 c1b84fbf c8349750 aaea03f0 c83497a0 a6f68460 rosetta_4.23_windows_x86_64!cppdb::atomic_counter::atomic_counter+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c1b7b4bb'
c8349d40 c1b845c5 c8349e20 c1b64aa6 00000018 a7192da0 rosetta_4.23_windows_x86_64!cppdb::atomic_counter::atomic_counter+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c1b84fbf'
c8349de0 c1b84671 00000005 c834a440 a6f68460 00000001 rosetta_4.23_windows_x86_64!cppdb::atomic_counter::atomic_counter+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c1b845c5'
c8349f70 c16a04f4 c834a038 a7149aa0 a7149aa0 a6fb54e0 rosetta_4.23_windows_x86_64!cppdb::atomic_counter::atomic_counter+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c1b84671'
c835f700 c2d667ac 00000000 00000000 a67eab00 00000000 rosetta_4.23_windows_x86_64!cppdb::backend::driver::connect+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c16a04f4'
c835f740 54f37614 00000000 00000000 00000000 00000000 rosetta_4.23_windows_x86_64!cppdb::shared_object::safe_sym+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'c2d667ac'
c835f770 56f226a1 00000000 00000000 00000000 00000000 KERNEL32!BaseThreadInitThunk+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '54f37614'
c835f7f0 00000000 00000000 00000000 00000000 00000000 ntdll!RtlUserThreadStart+0x0 SymFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '56f226a1'

*** Dump of thread ID 32762 (state: Initialized): ***

- Information -
Status: Base Priority: Normal, Priority: Unknown, , Kernel Time: 6.000000, User Time: 0.000000, Wait Time: 2486621696.000000

- 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 !0+0x0


*** Debug Message Dump ****


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

Exiting...

</stderr_txt>
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Message 7321 - Posted: 26 Mar 2023, 9:39:03 UTC

And, still, "test_GALingandDocking" wus validation error...
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kotenok2000
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Message 7322 - Posted: 28 Mar 2023, 4:55:25 UTC - in response to Message 7321.  
Last modified: 28 Mar 2023, 5:00:15 UTC

Why does every ralph task extract entire database to slot directory?
Rosetta uses shared database in project directory.
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Message boards : RALPH@home bug list : Rosetta 4.23



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