Crash on 1600

Case number:845829-2006222
Topic:Crash/Hang
Opened by:MurloW
Status:Open
Type:Bug
Opened on:Friday, November 16, 2018 - 11:47
Last modified:Friday, November 16, 2018 - 11:47

First crash log is on a local wiggle of 2 segments with a cutpoint between them:

Resymmetrized pose
Playing sound: 4
Resymmetrized pose
Playing sound: 4
Resymmetrized pose
Playing sound: 4
Sending SOPs:

***** STARTING THREAD ActionLocalMinimize
RT: 11111111111111111111111111111111111111111111111111111111111111100111111
Unideality at position 64, adding dofs.
Unideality at position 65, adding dofs.
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-1, 64-2, 64-3, 65-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-2, 64-3, 65-1, 65-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-3, 65-1, 65-2, 65-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-1, 135-2, 135-3, 136-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-2, 135-3, 136-1, 136-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-3, 136-1, 136-2, 136-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-1, 46-2, 46-3, 47-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-2, 46-3, 47-1, 47-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-3, 47-1, 47-2, 47-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-1, 55-2, 55-3, 56-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-2, 55-3, 56-1, 56-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-3, 56-1, 56-2, 56-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-1, 64-2, 64-3, 65-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-2, 64-3, 65-1, 65-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-3, 65-1, 65-2, 65-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-1, 117-2, 117-3, 118-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-2, 117-3, 118-1, 118-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-3, 118-1, 118-2, 118-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-1, 126-2, 126-3, 127-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-2, 126-3, 127-1, 127-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-3, 127-1, 127-2, 127-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-1, 135-2, 135-3, 136-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-2, 135-3, 136-1, 136-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-3, 136-1, 136-2, 136-3!
core.conformation.symmetry.Conformation: [ WARNING ] SymmetricConformation:: directly setting a dependent ATOM!
core.conformation.symmetry.Conformation: [ WARNING ] the jump 5 is controlled by 1
core.conformation.symmetry.Conformation: [ WARNING ] SymmetricConformation:: directly setting a dependent ATOM!
core.conformation.symmetry.Conformation: [ WARNING ] the jump 7 is controlled by 3

UNHANDLED EXCEPTION
1: RaiseException +88 bytes (no line)
2: _CxxThrowException +101 bytes (no line)
3: numeric::xyzVector::normalize +199 bytes (no line)
4: core::scoring::dssp::get_CA_vectors +235 bytes (no line)
5: core::scoring::dssp::get_pairing_geometry +1081 bytes (no line)
6: core::scoring::dssp::get_pleating +41 bytes (no line)
7: core::scoring::dssp::StrandPairingSet::compute +205 bytes (no line)
8: core::scoring::dssp::StrandPairingSet::StrandPairingSet +108 bytes (no line)
9: core::scoring::dssp::Dssp::compute +1044 bytes (no line)
10: core::scoring::dssp::Dssp::Dssp +154 bytes (no line)
11: interactive::application::appfilter::LayerScoreFilter::compute_layers +65 bytes (no line)
12: interactive::application::appfilter::LayerScoreFilter::apply +109 bytes (no line)
13: interactive::util::Filter::apply_filter +575 bytes (no line)
14: interactive::util::ReferencePoseInfo::score_pose +1749 bytes (no line)
15: interactive::application::actions::cart::PoseLoopThreadActionCart::update_game_pose_from_work_pose +757 bytes (no line)
16: interactive::application::actions::cart::PoseLoopThreadActionCart::minimizer_pose_updater +792 bytes (no line)
17: boost::function0::operator() +120 bytes (no line)
18: interactive::util::Thread::thread_entry_func +69 bytes (no line)
19: interactive::util::Thread::win32_thread_startup_helper +14 bytes (no line)
20: BaseThreadInitThunk +18 bytes (no line)
21: RtlInitializeExceptionChain +99 bytes (no line)
22: RtlInitializeExceptionChain +54 bytes (no line)

----------------------------------------------------------
2nd crash log is on a global wiggle with 3 cutpoints throughout structure.

core.conformation.symmetry.SymmData: [ WARNING ] Setting jump_group JGS: [master 4] 5:0
core.conformation.symmetry.SymmData: [ WARNING ] Setting weight of master jump ( jump-id=1 ) to 1.0 (was undefined)
core.conformation.symmetry.SymmData: [ WARNING ] Setting jump_group JGSS: [master 1] 2:0
core.pose.util: [ WARNING ] conf2pdb_chain(): PDBInfo does not exist, returning default map 1=A, 2=B, ...
Sending SOPs:

***** STARTING THREAD ActionGlobalMinimize
RT: 11111111111111111111111111111111111111111111111111111111111111111111111
Unideality at position 37, adding dofs.
Unideality at position 38, adding dofs.
Unideality at position 46, adding dofs.
Unideality at position 47, adding dofs.
Unideality at position 55, adding dofs.
Unideality at position 56, adding dofs.
Unideality at position 64, adding dofs.
Unideality at position 65, adding dofs.
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-1, 46-2, 46-3, 47-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-2, 46-3, 47-1, 47-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-3, 47-1, 47-2, 47-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-1, 55-2, 55-3, 56-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-2, 55-3, 56-1, 56-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-3, 56-1, 56-2, 56-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-1, 64-2, 64-3, 65-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-2, 64-3, 65-1, 65-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-3, 65-1, 65-2, 65-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-1, 117-2, 117-3, 118-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-2, 117-3, 118-1, 118-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-3, 118-1, 118-2, 118-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-1, 126-2, 126-3, 127-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-2, 126-3, 127-1, 127-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-3, 127-1, 127-2, 127-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-1, 135-2, 135-3, 136-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-2, 135-3, 136-1, 136-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-3, 136-1, 136-2, 136-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-1, 46-2, 46-3, 47-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-2, 46-3, 47-1, 47-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 46-3, 47-1, 47-2, 47-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-1, 55-2, 55-3, 56-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-2, 55-3, 56-1, 56-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 55-3, 56-1, 56-2, 56-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-1, 64-2, 64-3, 65-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-2, 64-3, 65-1, 65-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 64-3, 65-1, 65-2, 65-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-1, 117-2, 117-3, 118-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-2, 117-3, 118-1, 118-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 117-3, 118-1, 118-2, 118-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-1, 126-2, 126-3, 127-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-2, 126-3, 127-1, 127-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 126-3, 127-1, 127-2, 127-3!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-1, 135-2, 135-3, 136-1!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-2, 135-3, 136-1, 136-2!
core.kinematics.AtomTree: [ ERROR ] No proper DoF can be found for these four atoms: 135-3, 136-1, 136-2, 136-3!
core.conformation.symmetry.Conformation: [ WARNING ] SymmetricConformation:: directly setting a dependent ATOM!
core.conformation.symmetry.Conformation: [ WARNING ] the jump 5 is controlled by 1
core.conformation.symmetry.Conformation: [ WARNING ] SymmetricConformation:: directly setting a dependent ATOM!
core.conformation.symmetry.Conformation: [ WARNING ] the jump 7 is controlled by 3

UNHANDLED EXCEPTION
1: RaiseException +88 bytes (no line)
2: _CxxThrowException +101 bytes (no line)
3: numeric::xyzVector::normalize +199 bytes (no line)
4: core::scoring::dssp::get_CA_vectors +235 bytes (no line)
5: core::scoring::dssp::get_pairing_geometry +1081 bytes (no line)
6: core::scoring::dssp::get_pleating +41 bytes (no line)
7: core::scoring::dssp::StrandPairingSet::compute +205 bytes (no line)
8: core::scoring::dssp::StrandPairingSet::StrandPairingSet +108 bytes (no line)
9: core::scoring::dssp::Dssp::compute +1044 bytes (no line)
10: core::scoring::dssp::Dssp::Dssp +154 bytes (no line)
11: interactive::application::appfilter::LayerScoreFilter::compute_layers +65 bytes (no line)
12: interactive::application::appfilter::LayerScoreFilter::apply +109 bytes (no line)
13: interactive::util::Filter::apply_filter +575 bytes (no line)
14: interactive::util::ReferencePoseInfo::score_pose +1749 bytes (no line)
15: interactive::application::actions::cart::PoseLoopThreadActionCart::update_game_pose_from_work_pose +757 bytes (no line)
16: interactive::application::actions::cart::PoseLoopThreadActionCart::minimizer_pose_updater +792 bytes (no line)
17: boost::function0::operator() +120 bytes (no line)
18: interactive::util::Thread::thread_entry_func +69 bytes (no line)
19: interactive::util::Thread::win32_thread_startup_helper +14 bytes (no line)
20: BaseThreadInitThunk +18 bytes (no line)
21: RtlInitializeExceptionChain +99 bytes (no line)
22: RtlInitializeExceptionChain +54 bytes (no line)

----------------------------------------------------

Both are on a pose with 3 cutpoints spread out, about 60% of structure has frozen backbone, no bands, all AAs valine, nowhere near its symmetrical copy.

Shared solution to scientists.

(Fri, 11/16/2018 - 11:47  |  0 comments)


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Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons