1853 crashing 0618 main build

Case number:845829-2009857
Topic:Crash/Hang
Opened by:CharlieFortsCon...
Status:Open
Type:Bug
Opened on:Friday, June 19, 2020 - 20:30
Last modified:Tuesday, June 23, 2020 - 04:53

Having a problem playing the new 1853 puzzle, I have yet to complete a full round of mutate, and it's crashing. Happening in both solo and evo. I've recently had the main 0618 update. Here's the end of the log.txt file

core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 92. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 92 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 183
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 184) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 183. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 183 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 1
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 2) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 92
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 93) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 92. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 92 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 183
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 184) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 183. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 183 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.

UNHANDLED EXCEPTION
1: no symbol (no line)
2: no symbol (no line)
3: no symbol (no line)
4: no symbol (no line)
5: no symbol (no line)
6: no symbol (no line)
7: no symbol (no line)
8: no symbol (no line)
9: no symbol (no line)
10: no symbol (no line)
11: no symbol (no line)
12: no symbol (no line)
13: no symbol (no line)
14: no symbol (no line)
15: no symbol (no line)
16: no symbol (no line)
17: no symbol (no line)
18: no symbol (no line)
19: no symbol (no line)
20: no symbol (no line)
21: no symbol (no line)
22: no symbol (no line)
Sending SOPs:

(Fri, 06/19/2020 - 20:30  |  9 comments)


Hanto's picture
User offline. Last seen 7 weeks 4 days ago. Offline
Joined: 05/10/2008
Groups: None

Worked fine earlier when using a MUTATE ONCE long running recipe on DEVPREV yesterday. Win 10 2004 devprev NOT MAIN in my case.

Joined: 05/03/2009
Groups: Contenders

to be honest, I've been having issues with Design puzzles for the last 2 or 3 weeks, I thought it might be recipe specific, but 1853 seems different, I'm just doing basic start game stuff. And of course, I'm not doing anything out of the ordinary on the rest of the laptop, and I should have pointed out I'm running Win10.

agcohn821's picture
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Joined: 11/05/2019
Groups: Foldit Staff

Design Puzzles

Hey CharlieFortsConscience--thank you for letting us know about these issues. I have passed it along to the team.

Hanto's picture
User offline. Last seen 7 weeks 4 days ago. Offline
Joined: 05/10/2008
Groups: None

in my case running a non mutate glycine hinge presently, when that finishes, will try something with a mutate again. so very basic on my end also on a i3 ( 1st or 2nd gen ) desktop, so very old.

Hanto's picture
User offline. Last seen 7 weeks 4 days ago. Offline
Joined: 05/10/2008
Groups: None

ran several mutating recipe varients using a laptop ( 2nd gen i7 ) on 1853 with no indications of issues. Even got a small score increase from the mutate, but otherwise a-ok. Check your hot air exhaust vents for dust or obstruction of air flow and overclocking WILL CAUSE file corruptions.

Hanto's picture
User offline. Last seen 7 weeks 4 days ago. Offline
Joined: 05/10/2008
Groups: None

Highly recommend removing old thermal paste and reapplying NEW thermal paste on processors playing foldit every year or so. vents usually need cleaning more often then once yearly even if not a smoker. my computers run 24/7/365 unless in maintenance.

SKSbell's picture
User offline. Last seen 14 hours 16 min ago. Offline
Joined: 12/01/2008
Groups: None

I'm having repeated crashes on 1853 that are not mutate related. Running the new update on Windows 10. I don't know what part of the log would be helpful - here's a portion:

core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 1
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 2) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 92
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 93) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 92. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 92 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 183
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 184) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 183. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 183 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
***** ENDING THREAD ActionGlobalMinimize

Can provide the entire log if needed.

spdenne's picture
User offline. Last seen 1 week 1 day ago. Offline
Joined: 10/01/2011
Groups: Void Crushers

The BUNS filter is crashing my client regularly. I've been getting "no symbol" stack traces. Finally Clicking Run resulted in a hopefully useful stack trace:

setting side chain mode to: 2 Show All (Slow)
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 1
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 2) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 1. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 1 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 92
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 93) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 92. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 92 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.
core.conformation.Residue: [ WARNING ] Residue connection id changed when creating a new residue at seqpos 183
core.conformation.Residue: [ WARNING ] ResConnID info stored on the connected residue (residue 184) is now out of date!
core.conformation.Residue: [ WARNING ] Connection atom name (in src): C
core.chemical.AtomICoor: [ WARNING ] IcoorAtomID::atom_id(): Cannot get atom_id for POLYMER_LOWER of residue LEU 183. Returning BOGUS ID instead.
core.conformation.Residue: [ WARNING ] missing an atom: 183 H that depends on a nonexistent polymer connection!
core.conformation.Residue: [ WARNING ] --> generating it using idealized coordinates.

UNHANDLED EXCEPTION
1: protocols::vardist_solaccess::VarSolDistSasaCalculator::recompute +963 bytes (no line)
2: core::pose::metrics::StructureDependentCalculator::get +20 bytes (no line)
3: core::pose::metrics::PoseMetricContainer::get +74 bytes (no line)
4: core::pose::Pose::metric +21 bytes (no line)
5: protocols::toolbox::pose_metric_calculators::BuriedUnsatisfiedPolarsCalculator::calculate_sasa +1097 bytes (no line)
6: protocols::toolbox::pose_metric_calculators::BuriedUnsatisfiedPolarsCalculator::recompute +784 bytes (no line)
7: interactive::application::appfilter::BuriedUnsatScoreFilter::buns +805 bytes (no line)
8: interactive::application::appfilter::BuriedUnsatScoreFilter::compute +868 bytes (no line)
9: interactive::application::appfilter::BuriedUnsatScoreFilter::apply +84 bytes (no line)
10: interactive::rosetta_util::Filter::apply_filter +593 bytes (no line)
11: interactive::rosetta_util::ReferencePoseInfo::run_filter +140 bytes (no line)
12: standalone::application::FilterWidget::run_filter_internal +193 bytes (no line)
13: standalone::application::FilterWidget::run_filter_callback +48 bytes (no line)
14: interactive::util::detail::checked_fxn_wrapper::operator() +83 bytes (no line)
15: boost::detail::function::void_function_obj_invoker0,boost::_bi::list2 >,boost::_bi::value > >,void>::invoke +32 bytes (no line)
16: boost::function0::operator() +120 bytes (no line)
17: interactive::gui::TextButton::generate_click +98 bytes (no line)
18: interactive::gui::TextButton::on_mouse_up +90 bytes (no line)
19: interactive::gui::TopLevel::on_mouse_up +184 bytes (no line)
20: interactive::guiwrapper::GUIWrapper::generic_mouse_button_func +752 bytes (no line)
21: interactive::util::detail::checked_fxn_wrapper::operator() +95 bytes (no line)
22: boost::detail::function::void_function_obj_invoker0,boost::_bi::list5 >,boost::_bi::value,boost::_bi::value,boost::_bi::value,boost::_bi::value > >,void>::invoke +46 bytes (no line)
23: boost::function0::operator() +120 bytes (no line)
24: interactive::guiwrapper::GUIWrapper::enqueue_event +76 bytes (no line)
25: interactive::guiwrapper::win32::Win32Wrapper::win_mouse_button_func +106 bytes (no line)
26: interactive::guiwrapper::win32::Win32Wrapper::WndProc +1153 bytes (no line)
27: AddClipboardFormatListener +75 bytes (no line)
28: GetClassLongW +1962 bytes (no line)
29: GetSystemMetricsForDpi +4487 bytes (no line)
30: CallWindowProcW +27 bytes (no line)
31: glDebugEntry +3626 bytes (no line)
32: AddClipboardFormatListener +75 bytes (no line)
33: GetClassLongW +1962 bytes (no line)
34: DispatchMessageW +586 bytes (no line)
35: DispatchMessageA +16 bytes (no line)
36: interactive::guiwrapper::win32::Win32Wrapper::start +341 bytes (no line)
37: interactive::application::interactive_main +2622 bytes (no line)
38: game::application::game_main +1321 bytes (no line)
39: library_main +21 bytes (no line)
40: no symbol (no line)
41: no symbol (no line)
42: no symbol (no line)
43: BaseThreadInitThunk +25 bytes (no line)
44: RtlGetAppContainerNamedObjectPath +228 bytes (no line)
45: RtlGetAppContainerNamedObjectPath +180 bytes (no line)

neilpg628's picture
User offline. Last seen 13 hours 27 min ago. Offline
Joined: 08/01/2019
Groups: Foldit Staff

This should be fixed in the next release!

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