[gate-users] Core dump

[Susana Silva]

Hi, everybody!

I'm using GATE for a few months (version 1.2.0 with geant4 7.0.p01). In the last couple of weeks it seems that I have a problem and I can't find the reason. I have read the last messages and some of you had also this problem, but in another conditions...

When I type "exit" in the prompt idle, after finishing the simulation, GATE produces a core dump, and when it runs simulations like benchmarkPET it occurs the same (seems that GATE sometimes don't like to open another root file to record the information of the simulation...). This problem appeared recently and I did not had this problem when I started using GATE, and only in some of the times (it's not deterministic)!

Attacahed is the error messsage. Thanks in advance for your help.

Cheers,

Susana Silva


******************************Exit from GATE******************************

Idle> exit

 *** Break *** write on a pipe with no one to read it
Error in <RootX11IOErrorHandler>: fatal X11 error (connection to server lost?!)

 **** Save data and exit application ****

WARNING - Attempt to delete the physical volume store while geometry closed !
WARNING - Attempt to delete the logical volume store while geometry closed !
WARNING - Attempt to delete the solid store while geometry closed !

  *** Break *** segmentation violation
Generating stack trace...
0x41584f78 in __libc_free + 0x88 from /lib/tls/libc.so.6
0x414e21c3 in operator delete(void*) + 0x23 from /usr/lib/libstdc++.so.5
0x086c4d15 in G4LossTableManager::~G4LossTableManager [in-charge]() + 0x231 from ./Gate
0x4153f3d3 in exit + 0x63 from /lib/tls/libc.so.6
0x4136e475 in <unknown> from /usr/X11R6/lib/libX11.so.6
0x4136bfa4 in _XSend + 0x244 from /usr/X11R6/lib/libX11.so.6
0x412f3372 in __glXFlushRenderBuffer + 0xa2 from /usr/X11R6/lib/libGL.so.1
0x412f329d in __glXSetupForCommand + 0x3d from /usr/X11R6/lib/libGL.so.1
0x412f371d in glXMakeCurrent + 0x2d from /usr/X11R6/lib/libGL.so.1
0x082e1f50 in G4OpenGLXViewer::~G4OpenGLXViewer [not-in-charge]() + 0x40 from ./Gate
0x082e018c in G4OpenGLStoredXViewer::~G4OpenGLStoredXViewer [in-charge deleting]() + 0x4c from ./Gate
0x0855d517 in G4VSceneHandler::~G4VSceneHandler [not-in-charge]() + 0x33 from ./Gate
0x082e4046 in G4OpenGLSceneHandler::~G4OpenGLSceneHandler [not-in-charge]() + 0x1e from ./Gate
0x082e6229 in G4OpenGLStoredSceneHandler::~G4OpenGLStoredSceneHandler [in-charge deleting]() + 0xf5 from ./Gate
0x08557f1c in G4VisManager::~G4VisManager [not-in-charge]() + 0x98 from ./Gate
0x081a0a36 in GateVisManager::~GateVisManager [in-charge deleting]() + 0x16 from ./Gate
0x0816e2e5 in main + 0x429 from ./Gate
0x4152a748 in __libc_start_main + 0xf8 from /lib/tls/libc.so.6
0x0816d81d in TFile::TFile[in-charge](char const*, char const*, char const*, int) + 0x41 from ./Gate
Abort (core dumped)


******************************BenchmarkPET Error******************************

[GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING : positron found and photonID vector size: 4
GateAnalysis::RecordEndOfEvent : WARNING : photonID vector size > 2

 *** Break *** write on a pipe with no one to read it
Error in <RootX11IOErrorHandler>: fatal X11 error (connection to server lost?!)

**** Save data and exit application ****

WARNING - Attempt to delete the physical volume store while geometry closed !
WARNING - Attempt to delete the logical volume store while geometry closed !
WARNING - Attempt to delete the solid store while geometry closed !

 *** Break *** segmentation violation
 Generating stack trace...
 0xb6024f78 in __libc_free + 0x88 from /lib/tls/libc.so.6
 0xb61801c3 in operator delete(void*) + 0x23 from /usr/lib/libstdc++.so.5
 0x086c4d15 in G4LossTableManager::~G4LossTableManager [in-charge]() + 0x231 from ./Gate
 0xb5fdf3d3 in exit + 0x63 from /lib/tls/libc.so.6
 0xb6220475 in <unknown> from /usr/X11R6/lib/libX11.so.6
 0xb621dfa4 in _XSend + 0x244 from /usr/X11R6/lib/libX11.so.6
 0xb6312372 in __glXFlushRenderBuffer + 0xa2 from /usr/X11R6/lib/libGL.so.1
 0xb630f07a in glXWaitGL + 0x3a from /usr/X11R6/lib/libGL.so.1
 0x082e13e3 in G4OpenGLXViewer::ShowView() + 0xb from ./Gate
 0x08584e7e in G4VisCommandViewerUpdate::SetNewValue(G4UIcommand*, G4String) + 0x32 from ./Gate
 0x087c54e8 in G4UIcommand::DoIt(G4String) + 0xd0 from ./Gate
 0x087d2e9e in G4UImanager::ApplyCommand(char const*) + 0x522 from ./Gate
 0x08189d03 in GateRunAction::EndOfRunAction(G4Run const*) + 0x47 from ./Gate
 0x08674ac8 in G4RunManager::RunTermination() + 0xd8 from ./Gate
 0x08673fec in G4RunManager::BeamOn(int, char const*, int) + 0x50 from ./Gate
 0x0816fafa in GateApplicationMgr::StartDAQ() + 0x142 from ./Gate
 0x081aa187 in GateApplicationMgrMessenger::SetNewValue(G4UIcommand*, G4String) + 0x11b from ./Gate
 0x087c54e8 in G4UIcommand::DoIt(G4String) + 0xd0 from ./Gate
 0x087d2e9e in G4UImanager::ApplyCommand(char const*) + 0x522 from ./Gate
 0x087dba16 in G4UIbatch::SessionStart() + 0x202 from ./Gate
 0x087d1139 in G4UImanager::ExecuteMacroFile(char const*) + 0x31 from ./Gate
 0x087e067f in G4UIcontrolMessenger::SetNewValue(G4UIcommand*, G4String) + 0x2b3 from ./Gate
 0x087c54e8 in G4UIcommand::DoIt(G4String) + 0xd0 from ./Gate
 0x087d2e9e in G4UImanager::ApplyCommand(char const*) + 0x522 from ./Gate
 0x087dba16 in G4UIbatch::SessionStart() + 0x202 from ./Gate
 0x087d1139 in G4UImanager::ExecuteMacroFile(char const*) + 0x31 from ./Gate
 0x0819f210 in GateUIcontrolMessenger::LaunchMacroFile(G4String) + 0xb8 from ./Gate
 0x0819f0f3 in GateUIcontrolMessenger::SetNewValue(G4UIcommand*, G4String) + 0x97 from ./Gate
 0x087c54e8 in G4UIcommand::DoIt(G4String) + 0xd0 from ./Gate
 0x087d2e9e in G4UImanager::ApplyCommand(char const*) + 0x522 from ./Gate
 0x0816e253 in main + 0x397 from ./Gate
 0xb5fca748 in __libc_start_main + 0xf8 from /lib/tls/libc.so.6
 0x0816d81d in TFile::TFile[in-charge](char const*, char const*, char const*, int) + 0x41 from ./Gate
Abort (core dumped)