Crashes on Linux

Case number:845829-2005406
Topic:Crash/Hang
Opened by:ieewm
Status:Open
Type:Bug
Opened on:Sunday, June 17, 2018 - 23:41
Last modified:Tuesday, November 20, 2018 - 20:07

FoldIt regularly crashes on my system.

Some examples:

% ./Foldit
terminate called after throwing an instance of 'std::logic_error'
what(): basic_string::_S_construct null not valid
zsh: abort (core dumped) ./Foldit

% ./Foldit
Foldit Error: The game has previously not started up correctly.
If this problem persists, please install the latest version.
AL lib: (EE) ALCplaybackOSS_open: Could not open /dev/dsp: No such file or directory
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
AL lib: (WW) ALCplaybackOSS_open: Could not find "Generic Software" in device list
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
terminate called after throwing an instance of 'interactive::util::Exception'
zsh: abort (core dumped) ./Foldit

% ./Foldit
AL lib: (EE) ALCplaybackOSS_open: Could not open /dev/dsp: No such file or directory
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
AL lib: (WW) ALCplaybackOSS_open: Could not find "Generic Software" in device list
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
zsh: segmentation fault (core dumped) ./Foldit

This is Fedora 28 x86_64.

(Sun, 06/17/2018 - 23:41  |  12 comments)


vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

Foldit crashes when i run Tvdl enhanced DRW scrypt

AL lib: (EE) ALCplaybackOSS_open: Could not open /dev/dsp: No such file or directory
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
AL lib: (WW) ALCplaybackOSS_open: Could not find "Generic Software" in device list
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc
Aborted

My system is Mint 18.3 x64

vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

Another crash:

AL lib: (EE) ALCplaybackOSS_open: Could not open /dev/dsp: No such file or directory
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
AL lib: (WW) ALCplaybackOSS_open: Could not find "Generic Software" in device list
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004

(firefox:21527): Gtk-WARNING **: Locale not supported by C library.
Using the fallback 'C' locale.

(/usr/lib/firefox/firefox:21532): Gtk-WARNING **: Locale not supported by C library.
Using the fallback 'C' locale.
terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc
Aborted

vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

Another one:
AL lib: (EE) ALCplaybackOSS_open: Could not open /dev/dsp: No such file or directory
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
AL lib: (WW) ALCplaybackOSS_open: Could not find "Generic Software" in device list
AL lib: (WW) alcSetError: Error generated on device (nil), code 0xa004
*** Error in `./Foldit': double free or corruption (fasttop): 0x00007fd424a9bcf0 ***
======= Backtrace: =========
/lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7fd4372e97e5]
/lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7fd4372f237a]
/lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7fd4372f653c]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN4core7scoring16electron_density15ElectronDensity13dCCdx_fastResEiiRKN7numeric9xyzVectorIdEERKNS_12conformation7ResidueERKNS_4pose4PoseERS5_+0x4f6)[0x7fd4348a1306]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZNK4core7scoring16electron_density14FastDensEnergy29eval_residue_pair_derivativesERKNS_12conformation7ResidueES6_RKNS0_25ResSingleMinimizationDataES9_RKNS0_23ResPairMinimizationDataERKNS_4pose4PoseERKNS0_10EMapVectorERN7utility7vector1INS0_15DerivVectorPairESaISM_EEESP_+0xbbc)[0x7fd4348a888c]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN4core7scoring33eval_atom_derivatives_for_minedgeERKNS0_16MinimizationEdgeERKNS_12conformation7ResidueES7_RKNS0_25ResSingleMinimizationDataESA_RKNS_4pose4PoseERKNS0_10EMapVectorERN7utility7vector1INS0_15DerivVectorPairESaISK_EEESN_+0xa3)[0x7fd4347706e3]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN4core12optimization29atom_tree_get_atompairE_derivERNS_4pose4PoseERNS0_12MinimizerMapERKNS_7scoring13ScoreFunctionE+0x151)[0x7fd4344fa251]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN4core12optimization15atom_tree_dfuncERNS_4pose4PoseERNS0_12MinimizerMapERKNS_7scoring13ScoreFunctionERKN7utility7vector1IdSaIdEEERSD_+0xc0)[0x7fd4344fa510]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZNK4core12optimization17AtomTreeMultifunc5dfuncERKN7utility7vector1IdSaIdEEERS5_+0x28)[0x7fd4344e8988]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZNK4core12optimization9Minimizer13dfpmin_armijoERN7utility7vector1IdSaIdEEERdRNS0_15ConvergenceTestESt10shared_ptrINS0_25LineMinimizationAlgorithmEEi+0x86c)[0x7fd4344f33ec]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN4core12optimization9Minimizer3runERN7utility7vector1IdSaIdEEE+0x76e)[0x7fd4344f53ce]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN4core12optimization17AtomTreeMinimizer3runERNS_4pose4PoseERKNS_10kinematics7MoveMapERKNS_7scoring13ScoreFunctionERKNS0_16MinimizerOptionsE+0x8b8)[0x7fd4344e7dd8]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN4core12optimization17AtomTreeMinimizer3runERNS_4pose4PoseERKNS_10kinematics7MoveMapERKNS_7scoring13ScoreFunctionERKNS0_16MinimizerOptionsERNS0_15MinimizerHelperE+0xe)[0x7fd4344e71ce]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN11interactive11application7actions4cart24PoseLoopThreadActionCart26run_minimizer_on_work_poseERKN4core10kinematics7MoveMapERKNS4_7scoring13ScoreFunctionEi+0x35e)[0x7fd431fe591e]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN11interactive11application7actions4cart22ActionCartGlobalWiggle25thread_body_loop_unlockedERN4core4pose4PoseE+0x85)[0x7fd4322c7955]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN11interactive11application7actions4cart24PoseLoopThreadActionCart13on_thread_runEv+0xdd5)[0x7fd431fe3625]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN11interactive4util6Thread17thread_entry_funcEv+0x2d)[0x7fd4321ed19d]
cmp-binary-65add88bf423ee4a976c3eda38f991bf/game_library.so(_ZN11interactive4util6Thread22pthread_startup_helperEPv+0x9)[0x7fd4321ed3d9]
/lib/x86_64-linux-gnu/libpthread.so.0(+0x76ba)[0x7fd42ea9f6ba]
/lib/x86_64-linux-gnu/libc.so.6(clone+0x6d)[0x7fd43737941d]
======= Memory map: ========
00400000-00405000 r-xp 00000000 08:04 27787895 /home/arioh/Foldit/Foldit
00604000-00605000 r--p 00004000 08:04 27787895 /home/arioh/Foldit/Foldit
00605000-00606000 rw-p 00005000 08:04 27787895 /home/arioh/Foldit/Foldit
01e1e000-07866000 rw-p 00000000 00:00 0 [heap]
7fd3cc000000-7fd3ce239000 rw-p 00000000 00:00 0
7fd3ce239000-7fd3d0000000 ---p 00000000 00:00 0
7fd3d0000000-7fd3d0021000 rw-p 00000000 00:00 0
7fd3d0021000-7fd3d4000000 ---p 00000000 00:00 0
7fd3d4000000-7fd3da67f000 rw-p 00000000 00:00 0
7fd3da67f000-7fd3dc000000 ---p 00000000 00:00 0
7fd3dc000000-7fd3de7c8000 rw-p 00000000 00:00 0
7fd3de7c8000-7fd3e0000000 ---p 00000000 00:00 0
7fd3e0000000-7fd3e3ffb000 rw-p 00000000 00:00 0
7fd3e3ffb000-7fd3e4000000 ---p 00000000 00:00 0
7fd3e4000000-7fd3e4022000 rw-p 00000000 00:00 0
7fd3e4022000-7fd3e8000000 ---p 00000000 00:00 0
7fd3e8000000-7fd3ec000000 rw-p 00000000 00:00 0
7fd3ec000000-7fd3ee278000 rw-p 00000000 00:00 0
7fd3ee278000-7fd3f0000000 ---p 00000000 00:00 0
7fd3f0000000-7fd3f039a000 rw-p 00000000 00:00 0
7fd3f039a000-7fd3f4000000 ---p 00000000 00:00 0
7fd3f4000000-7fd3f7ddd000 rw-p 00000000 00:00 0
7fd3f7ddd000-7fd3f8000000 ---p 00000000 00:00 0
7fd3f8000000-7fd3fbfca000 rw-p 00000000 00:00 0
7fd3fbfca000-7fd3fc000000 ---p 00000000 00:00 0
7fd3fc000000-7fd3ffc0d000 rw-p 00000000 00:00 0
7fd3ffc0d000-7fd400000000 ---p 00000000 00:00 0
7fd400000000-7fd404000000 rw-p 00000000 00:00 0
7fd404000000-7fd408000000 rw-p 00000000 00:00 0
7fd40c000000-7fd40fe47000 rw-p 00000000 00:00 0
7fd40fe47000-7fd410000000 ---p 00000000 00:00 0
7fd410000000-7fd413e35000 rw-p 00000000 00:00 0
7fd413e35000-7fd414000000 ---p 00000000 00:00 0
7fd414000000-7fd41524a000 rw-p 00000000 00:00 0
7fd41524a000-7fd418000000 ---p 00000000 00:00 0
7fd418285000-7fd418286000 rw-p 00000000 00:00 0
7fd418286000-7fd418287000 rw-s 00000000 00:19 453 /i915 (deleted)
7fd418287000-7fd418288000 rw-s 00000000 00:19 72 /i915 (deleted)
7fd418288000-7fd418289000 rw-s 00000000 00:19 328 /i915 (deleted)
7fd418289000-7fd418309000 rw-s 00000000 00:19 396 /i915 (deleted)
7fd418309000-7fd41830a000 ---p 00000000 00:00 0
7fd41830a000-7fd418b0a000 rw-p 00000000 00:00 0
7fd418b0a000-7fd418b0b000 rw-s 00000000 00:19 486 /i915 (deleted)
7fd418b0b000-7fd418b0c000 rw-s 00000000 00:19 485 /i915 (deleted)
7fd418b0c000-7fd418b0d000 rw-s 00000000 00:19 484 /i915 (deleted)
7fd418b0d000-7fd418b0e000 rw-s 00000000 00:19 479 /i915 (deleted)
7fd418b0e000-7fd418b0f000 rw-s 00000000 00:19 474 /i915 (deleted)
7fd418b0f000-7fd418b10000 rw-s 00000000 00:19 102 /i915 (deleted)
7fd418b10000-7fd418b11000 rw-s 00000000 00:19 352 /i915 (deleted)
7fd418b11000-7fd418b13000 rw-s 00000000 00:19 211 /i915 (deleted)
7fd418b13000-7fd418b14000 rw-s 00000000 00:19 477 /i915 (deleted)
7fd418b14000-7fd418b15000 rw-s 00000000 00:19 43 /i915 (deleted)
7fd418b15000-7fd418b16000 rw-s 00000000 00:19 462 /i915 (deleted)
7fd418b16000-7fd418b17000 rw-s 00000000 00:19 434 /i915 (deleted)
7fd418b17000-7fd418b18000 rw-s 00000000 00:19 403 /i915 (deleted)
7fd418b18000-7fd418b19000 rw-s 00000000 00:19 470 /i915 (deleted)
7fd418b19000-7fd418b1a000 rw-s 00000000 00:19 469 /i915 (deleted)
7fd418b1a000-7fd418b1b000 rw-s 00000000 00:19 119 /i915 (deleted)
7fd418b1b000-7fd418b1c000 rw-s 00000000 00:19 468 /i915 (deleted)
7fd418b1c000-7fd418b1d000 rw-s 00000000 00:19 467 /i915 (deleted)
7fd418b1d000-7fd418b1e000 rw-s 00000000 00:19 466 /i915 (deleted)
7fd418b1e000-7fd418b5e000 rw-s 00000000 00:19 428 /i915 (deleted)
7fd418b5e000-7fd418b5f000 ---p 00000000 00:00 0
7fd418b5f000-7fd41935f000 rw-p 00000000 00:00 0
7fd41935f000-7fd419360000 ---p 00000000 00:00 0
7fd419360000-7fd419b60000 rw-p 00000000 00:00 0
7fd419b60000-7fd419b65000 rw-s 00000000 00:19 392 /i915 (deleted)
7fd419b65000-7fd419b75000 rw-s 00000000 00:19 558 /i915 (deleted)
7fd419b75000-7fd419b79000 rw-s 00000000 00:19 557 /i915 (deleted)
7fd419b79000-7fd419b7e000 rw-s 00000000 00:19 556 /i915 (deleted)
7fd419b7e000-7fd419b8e000 rw-s 00000000 00:19 555 /i915 (deleted)
7fd419b8e000-7fd419b92000 rw-s 00000000 00:19 554 /i915 (deleted)
7fd419b92000-7fd419b97000 rw-s 00000000 00:19 553 /i915 (deleted)
7fd419b97000-7fd419ba7000 rw-s 00000000 00:19 552 /i915 (deleted)
7fd419ba7000-7fd419bab000 rw-s 00000000 00:19 551 /i915 (deleted)
7fd419bab000-7fd419bb0000 rw-s 00000000 00:19 550 /i915 (deleted)
7fd419bb0000-7fd419bc0000 rw-s 00000000 00:19 549 /i915 (deleted)
7fd419bc0000-7fd419bc4000 rw-s 00000000 00:19 548 /i915 (deleted)
7fd419bc4000-7fd419bc9000 rw-s 00000000 00:19 547 /i915 (deleted)
7fd419bc9000-7fd419bd9000 rw-s 00000000 00:19 546 /i915 (deleted)
7fd419bd9000-7fd419bde000 rw-s 00000000 00:19 544 /i915 (deleted)
7fd419bde000-7fd419bee000 rw-s 00000000 00:19 543 /i915 (deleted)
7fd419bee000-7fd419bf3000 rw-s 00000000 00:19 452 /i915 (deleted)
7fd419bf3000-7fd419c03000 rw-s 00000000 00:19 387 /i915 (deleted)
7fd419c03000-7fd419c07000 rw-s 00000000 00:19 450 /i915 (deleted)
7fd419c07000-7fd419c0c000 rw-s 00000000 00:19 449 /i915 (deleted)
7fd419c0c000-7fd419c10000 rw-s 00000000 00:19 545 /i915 (deleted)
7fd419c10000-7fd419c20000 rw-s 00000000 00:19 201 /i915 (deleted)
7fd419c20000-7fd419c25000 rw-s 00000000 00:19 441 /i915 (deleted)
7fd419c25000-7fd419c35000 rw-s 00000000 00:19 440 /i915 (deleted)
7fd419c35000-7fd419c36000 rw-s 00000000 00:19 464 /i915 (deleted)
7fd419c36000-7fd419c3a000 rw-s 00000000 00:19 542 /i915 (deleted)
7fd419c3a000-7fd419c3f000 rw-s 00000000 00:19 541 /i915 (deleted)
7fd419c3f000-7fd419c43000 rw-s 00000000 00:19 380 /i915 (deleted)
7fd419c43000-7fd419c53000 rw-s 00000000 00:19 385 /i915 (deleted)
7fd419c53000-7fd419c57000 rw-s 00000000 00:19 350 /i915 (deleted)
7fd419c57000-7fd419c67000 rw-s 00000000 00:19 429 /i915 (deleted)
7fd419c67000-7fd419c68000 rw-s 00000000 00:19 463 /i915 (deleted)
7fd419c68000-7fd419c6d000 rw-s 00000000 00:19 151 /i915 (deleted)
7fd419c6d000-7fd419c7d000 rw-s 00000000 00:19 411 /i915 (deleted)
7fd419c7d000-7fd419cbd000 rw-s 00000000 00:19 427 /i915 (deleted)
7fd419cbd000-7fd419cfd000 rw-s 00000000 00:19 426 /i915 (deleted)
7fd419cfd000-7fd419dfd000 rw-s 00000000 00:19 405 /i915 (deleted)
7fd419dfd000-7fd419e3d000 rw-s 00000000 00:19 425 /i915 (deleted)
7fd419e3d000-7fd419e7d000 rw-s 00000000 00:19 424 /i915 (deleted)
7fd419e7d000-7fd419ebd000 rw-s 00000000 00:19 422 /i915 (deleted)
7fd419ebd000-7fd419efd000 rw-s 00000000 00:19 421 /i915 (deleted)
7fd419efd000-7fd419f3d000 rw-s 00000000 00:19 420 /i915 (deleted)
7fd419f3d000-7fd419f7d000 rw-s 00000000 00:19 419 /i915 (deleted)
7fd419f7d000-7fd419fbd000 rw-s 00000000 00:19 418 /i915 (deleted)
7fd419fbd000-7fd419ffd000 rw-s 00000000 00:19 417 /i915 (deleted)
7fd419ffd000-7fd419ffe000 ---p 00000000 00:00 0
7fd419ffe000-7fd41a7fe000 rw-p 00000000 00:00 0
7fd41a7fe000-7fd41a7ff000 ---p 00000000 00:00 0
7fd41a7ff000-7fd41afff000 rw-p 00000000 00:00 0
7fd41afff000-7fd41b000000 ---p 00000000 00:00 0
7fd41b000000-7fd41b800000 rw-p 00000000 00:00 0
7fd41b800000-7fd41c000000 rw-s 00000000 00:19 293 /i915 (deleted)
7fd41c000000-7fd41c4e5000 rw-p 00000000 00:00 0
7fd41c4e5000-7fd420000000 ---p 00000000 00:00 0
7fd420000000-7fd420001000 rw-s 00000000 00:19 423 /i915 (deleted)
7fd420001000-7fd420002000 rw-s 00000000 00:19 107 /i915 (deleted)
7fd420002000-7fd420003000 rw-s 00000000 00:19 457 /i915 (deleted)
7fd420003000-7fd420007000 rw-s 00000000 00:19 404 /i915 (deleted)
7fd420007000-7fd420047000 rw-s 00000000 00:19 416 /i915 (deleted)
7fd420047000-7fd420087000 rw-s 00000000 00:19 415 /i915 (deleted)
7fd420087000-7fd4200c7000 rw-s 00000000 00:19 413 /i915 (deleted)
7fd4200c7000-7fd420107000 rw-s 00000000 00:19 412 /i915 (deleted)
7fd420107000-7fd420207000 rw-s 00000000 00:19 400 /i915 (deleted)
7fd420207000-7fd420307000 rw-s 00000000 00:19 399 /i915 (deleted)
7fd420307000-7fd420407000 rw-s 00000000 00:19 260 /i915 (deleted)
7fd420407000-7fd420507000 rw-s 00000000 00:19 198 /i915 (deleted)
7fd420507000-7fd420607000 rw-s 00000000 00:19 185 /i915 (deleted)
7fd420607000-7fd420610000 r-xp 00000000 08:02 1582142 /usr/lib/x86_64-linux-gnu/libXrender.so.1.3.0
7fd420610000-7fd42080f000 ---p 00009000 08:02 1582142 /usr/lib/x86_64-linux-gnu/libXrender.so.1.3.0
7fd42080f000-7fd420810000 r--p 00008000 08:02 1582142 /usr/lib/x86_64-linux-gnu/libXrender.so.1.3.0
7fd420810000-7fd420811000 rw-p 00009000 08:02 1582142 /usr/lib/x86_64-linux-gnu/libXrender.so.1.3.0
7fd420811000-7fd421812000 rw-p 00000000 00:00 0
7fd421812000-7fd421813000 rw-s 00000000 00:19 455 /i915 (deleted)
7fd421813000-7fd421814000 rw-s 00000000 00:19 454 /i915 (deleted)
7fd421814000-7fd421815000 rw-s 00000000 00:19 451 /i915 (deleted)
7fd421815000-7fd421825000 rw-s 00000000 00:19 138 /i915 (deleted)
7fd421825000-7fd421826000 rw-s 00000000 00:19 407 /i915 (deleted)
7fd421826000-7fd421866000 rw-s 00000000 00:19 410 /i915 (deleted)
7fd421866000-7fd4218a6000 rw-s 00000000 00:19 409 /i915 (deleted)
7fd4218a6000-7fd4218a7000 rw-s 00000000 00:19 406 /i915 (deleted)
7fd4218a7000-7fd4218a8000 rw-s 00000000 00:19 448 /i915 (deleted)
7fd4218a8000-7fd4218a9000 rw-s 00000000 00:19 444 /i915 (deleted)
7fd4218a9000-7fd4218b9000 rw-s 00000000 00:19 341 /i915 (deleted)
7fd4218b9000-7fd4218ba000 rw-s 00000000 00:19 389 /i915 (deleted)
7fd4218ba000-7fd4218bb000 rw-s 00000000 00:19 13 /i915 (deleted)
7fd4218bb000-7fd4218bc000 rw-s 00000000 00:19 285 /i915 (deleted)
7fd4218bc000-7fd4218bd000 rw-s 00000000 00:19 393 /i915 (deleted)
7fd4218bd000-7fd4218be000 rw-s 00000000 00:19 395 /i915 (deleted)
7fd4218be000-7fd4218bf000 rw-s 00000000 00:19 435 /i915 (deleted)
7fd4218bf000-7fd4218c4000 rw-s 00000000 00:19 386 /i915 (deleted)
7fd4218c4000-7fd4218c8000 rw-s 00000000 00:19 346 /i915 (deleted)
7fd4218c8000-7fd4218cd000 rw-s 00000000 00:19 340 /i915 (deleted)
7fd4218cd000-7fd4218d2000 rw-s 00000000 00:19 331 /i915 (deleted)
7fd4218d2000-7fd4218e2000 rw-s 00000000 00:19 222 /i915 (deleted)
7fd4218e2000-7fd4218f2000 rw-s 00000000 00:19 276 /i915 (deleted)
7fd4218f2000-7fd421932000 rw-s 00000000 00:19 408 /i915 (deleted)
7fd421932000-7fd421972000 rw-s 00000000 00:19 181 /i915 (deleted)
7fd421972000-7fd4219b2000 rw-s 00000000 00:19 90 /i915 (deleted)
7fd4219b2000-7fd4219f2000 rw-s 00000000 00:19 77 /i915 (deleted)
7fd4219f2000-7fd4219fb000 r-xp 00000000 08:02 1578111 /usr/lib/x86_64-linux-gnu/libXcursor.so.1.0.2
7fd4219fb000-7fd421bfa000 ---p 00009000 08:02 1578111 /usr/lib/x86_64-linux-gnu/libXcursor.so.1.0.2
7fd421bfa000-7fd421bfb000 r--p 00008000 08:02 1578111 /usr/lib/x86_64-linux-gnu/libXcursor.so.1.0.2
7fd421bfb000-7fd421bfc000 rw-p 00009000 08:02 1578111 /usr/lib/x86_64-linux-gnu/libXcursor.so.1.0.2
7fd421bfc000-7fd421dfc000 rw-s 00000000 00:19 319 /i915 (deleted)
7fd421dfc000-7fd421ffc000 rw-s 00000000 00:19 154 /i915 (deleted)
7fd421ffc000-7fd421ffd000 ---p 00000000 00:00 0
7fd421ffd000-7fd4227fd000 rw-p 00000000 00:00 0
7fd4227fd000-7fd4227fe000 ---p 00000000 00:00 0
7fd4227fe000-7fd422ffe000 rw-p 00000000 00:00 0
7fd422ffe000-7fd422fff000 ---p 00000000 00:00 0
7fd422fff000-7fd4237ff000 rw-p 00000000 00:00 0
7fd4237ff000-7fd423bff000 rw-s 00000000 00:19 84 /i915 (deleted)
7fd423bff000-7fd423c00000 rw-s 00000000 00:19 394 /i915 (deleted)
7fd423c00000-7fd424000000 rw-s 00000000 00:19 274 /i915 (deleted)
7fd424000000-7fd428000000 rw-p 00000000 00:00 0
7fd428000000-7fd428004000 rw-s 00000000 00:19 345 /i915 (deleted)
7fd428004000-7fd428009000 rw-s 00000000 00:19 150 /i915 (deleted)
7fd428009000-7fd42800e000 rw-s 00000000 00:19 210 /i915 (deleted)
7fd42800e000-7fd42800f000 rw-s 00000000 00:19 383 /i915 (deleted)
7fd42800f000-7fd428013000 rw-s 00000000 00:19 223 /i915 (deleted)
7fd428013000-7fd428023000 rw-s 00000000 00:19 129 /i915 (deleted)
7fd428023000-7fd428024000 rw-s 00000000 00:19 379 /i915 (deleted)
7fd428024000-7fd428025000 rw-s 00000000 00:19 377 /i915 (deleted)
7fd428025000-7fd428026000 rw-s 00000000 00:19 376 /i915 (deleted)
7fd428026000-7fd428027000 rw-s 00000000 00:19 375 /i915 (deleted)
7fd428027000-7fd428047000 rw-s 00000000 00:19 357 /i915 (deleted)
7fd428047000-7fd428147000 rw-s 00000000 00:19 128 /i915 (deleted)
7fd428147000-7fd428148000 rw-s 00000000 00:19 388 /i915 (deleted)
7fd428148000-7fd42814c000 rw-s 00000000 00:19 79 /i915 (deleted)
7fd42814c000-7fd42815c000 rw-s 00000000 00:19 459 /i915 (deleted)
7fd42815c000-7fd42816c000 rw-s 00000000 00:19 305 /i915 (deleted)
7fd42816c000-7fd42816d000 rw-s 00000000 00:19 344 /i915 (deleted)
7fd42816d000-7fd42816e000 rw-s 00000000 00:19 156 /i915 (deleted)
7fd42816e000-7fd42816f000 rw-s 00000000 00:19 397 /i915 (deleted)
7fd42816f000-7fd428174000 rw-s 00000000 00:19 142 /i915 (deleted)
7fd428174000-7fd428175000 rw-s 00000000 00:19 101 /i915 (deleted)
7fd428175000-7fd428176000 rw-s 00000000 00:19 63 /i915 (deleted)
7fd428176000-7fd428177000 rw-s 00000000 00:19 44 /i915 (deleted)
7fd428177000-7fd428178000 rw-s 00000000 00:19 314 /i915 (deleted)
7fd428178000-7fd428179000 rw-s 00000000 00:19 310 /i915 (deleted)
7fd428179000-7fd42817d000 rw-s 00000000 00:19 202 /i915 (deleted)
7fd42817d000-7fd428181000 rw-s 00000000 00:19 373 /i915 (deleted)
7fd428181000-7fd4281c1000 rw-s 00000000 00:19 295 /i915 (deleted)
7fd4281c1000-7fd4281d1000 rw-s 00000000 00:19 348 /i915 (deleted)
7fd4281d1000-7fd4281d2000 rw-s 00000000 00:19 75 /i915 (deleted)
7fd4281d2000-7fd4281d3000 rw-s 00000000 00:19 343 /i915 (deleted)
7fd4281d3000-7fd4281d4000 rw-s 00000000 00:19 250 /i915 (deleted)
7fd4281d4000-7fd4281d5000 rw-s 00000000 00:19 242 /i915 (deleted)
7fd4281d5000-7fd4281d6000 rw-s 00000000 00:19 297 /i915 (deleted)
7fd4281d6000-7fd4281d7000 rw-s 00000000 00:19 374 /i915 (deleted)
7fd4281d7000-7fd4281d8000 rw-s 00000000 00:19 371 /i915 (deleted)
7fd4281d8000-7fd4281d9000 rw-s 00000000 00:19 370 /i915 (deleted)
7fd4281d9000-7fd4281da000 rw-s 00000000 00:19 369 /i915 (deleted)
7fd4281da000-7fd4281db000 rw-s 00000000 00:19 364 /i915 (deleted)Aborted

vakobo's picture
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Groups: Russian team

This was while 'Shake':

*** Error in `./Foldit': double free or corruption (fasttop): 0x00007ff7e09b87d0 ***
======= Backtrace: =========
/lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7ff7f3a907e5]
/lib/x86_64-linux-gnu/libc.so.6(terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc
Aborted

rmoretti's picture
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Consistent std::bad_alloc errors point to possible memory issues.

One thing I'd check is the amount of memory you have available. Foldit is relatively memory hungry, especially with large puzzles, so if you don't have a lot of free memory available for Foldit to use it may crash with bad_alloc errors. There's a number of programs you can use to monitor free memory, but "top" on the command line is one that's probably available on most Linux machines.

Another possibility I might suggest checking is if your computer's memory is okay. If the memory chips in your machine are failing, you can get issues like the ones you're seeing. Most Linux distributions have the capability of booting into a Memtest86 mode, which will provide an independent check of your computer's memory.

Of course, nothing rules out the fact that you're running up against a Foldit bug. If you have plenty of free memory and Memtest86 gives you a clean bill of health, any additional information regarding what causes the crashes (if it's confined to particular puzzles, if there's particular actions which consistently result in the crashes, etc.) would be helpful.

vakobo's picture
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Groups: Russian team

On 1575:

terminate called after throwing an instance of 'utility::UtilityExitException'
what():

File: /home/jflat06/foldit/develop/source/src/core/chemical/ResidueType.cc:4071
[ ERROR ] UtilityExitException
ERROR: unknown atom_name: '' in residue CYS:disulfide

Aborted

vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

To rmoretti - i have enough free memory and no memory errors.

Another 1575 crash:

terminate called after throwing an instance of 'utility::UtilityExitException'
what():

File: /home/jflat06/foldit/develop/source/src/core/chemical/ResidueType.cc:4071
[ ERROR ] UtilityExitException
ERROR: unknown atom_name: ' SG ' in residue CYS:disulfide

Aborted

vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

Repeated crash on start just when i restart FoldIt after previous crash during script execution.
*** Error in `./Foldit': free(): invalid pointer: 0x00007f29d5d301c0 ***

I managed to see the screen with logos and FoldIt crashes.

vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

Crashes every time when update process finished:

terminate called after throwing an instance of 'std::logic_error'
what(): basic_string::_S_construct null not valid
Aborted (core dumped)

Joined: 09/24/2012
Groups: Go Science

Crash Ubunto 16 when dealing too fast with hands on 1592

vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

Unusual crash on 1593:
terminate called after throwing an instance of 'utility::UtilityExitException'
what():

File: /home/jflat06/foldit/develop/source/src/core/chemical/ResidueType.cc:4071
[ ERROR ] UtilityExitException
ERROR: unknown atom_name: ' SG ' in residue CYS:disulfide

My system is Xubuntu 18.04.01 x64

vakobo's picture
User offline. Last seen 1 day 17 hours ago. Offline
Joined: 06/05/2008
Groups: Russian team

Crash after crash (Segmentation fault) on 1601:
terminate called after throwing an instance of 'utility::UtilityExitException'
what():

File: /home/jflat06/foldit/develop/source/src/core/chemical/ResidueTypeSet.cc:124
[ ERROR ] UtilityExitException
ERROR: The residue could not be generated. Has a suitable params file been loaded? (Note that custom params files not in the Rosetta database can be loaded with the -extra_res or -extra_res_fa command-line flags.)

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons