[Gate-users] benchPET segmentation fault

Patay Gergely patay.gergely at mediso.hu
Fri Mar 27 13:23:35 CET 2015 

Hi,

in short: comment out the

/gate/random/verbose 1

line in the benchPET.mac file.
For a more detailed explanation please read the discussion in mailing list 
archive 
(http://lists.opengatecollaboration.org/mailman/private/gate-users/2014-September/007725.html)

best regards,
  Gergely


On 2015-03-27 13:12, imen elhamrouni wrote:
> Hi again,
>
> Sorry for my insistence, i launched the benchPET example from gate but i have a
> segmentation fault problem as you can see below , i wonder if anyone have an idea
>
>   *** Break *** segmentation violation
>
>
>
> ===========================================================
> There was a crash (#8 0xb50bb93b in SigHandler(ESignals) () from
> /home/imen/root/lib/libCore.so).
> This is the entire stack trace of all threads:
> ===========================================================
>
> Thread 4 (Thread 0xaf666b40 (LWP 5251)):
> #0  0xb771f424 in __kernel_vsyscall ()
> #1  0xb3eab7ab in poll () at ../sysdeps/unix/syscall-template.S:81
> #2  0xb207620b in g_poll () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #3  0xb20673e8 in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #4  0xb2067528 in g_main_context_iteration () from
> /lib/i386-linux-gnu/libglib-2.0.so.0
> #5  0xaf71c670 in ?? () from /usr/lib/i386-linux-gnu/gio/modules/libdconfsettings.so
> #6  0xb208d9aa in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #7  0xb3f84f70 in start_thread (arg=0xaf666b40) at pthread_create.c:312
> #8  0xb3eba70e in clone () at ../sysdeps/unix/sysv/linux/i386/clone.S:129
>
> Thread 3 (Thread 0xaecffb40 (LWP 5252)):
> #0  0xb771f424 in __kernel_vsyscall ()
> #1  0xb3eab7ab in poll () at ../sysdeps/unix/syscall-template.S:81
> #2  0xb207620b in g_poll () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #3  0xb20673e8 in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #4  0xb206776b in g_main_loop_run () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #5  0xb00d936a in ?? () from /usr/lib/i386-linux-gnu/libgio-2.0.so.0
> #6  0xb208d9aa in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #7  0xb3f84f70 in start_thread (arg=0xaecffb40) at pthread_create.c:312
> #8  0xb3eba70e in clone () at ../sysdeps/unix/sysv/linux/i386/clone.S:129
>
> Thread 2 (Thread 0xadec3b40 (LWP 5253)):
> #0  0xb771f424 in __kernel_vsyscall ()
> #1  0xb3eab7ab in poll () at ../sysdeps/unix/syscall-template.S:81
> #2  0xb207620b in g_poll () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #3  0xb20673e8 in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #4  0xb2067528 in g_main_context_iteration () from
> /lib/i386-linux-gnu/libglib-2.0.so.0
> #5  0xb206757e in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #6  0xb208d9aa in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #7  0xb3f84f70 in start_thread (arg=0xadec3b40) at pthread_create.c:312
> #8  0xb3eba70e in clone () at ../sysdeps/unix/sysv/linux/i386/clone.S:129
>
> Thread 1 (Thread 0xb1f49000 (LWP 5250)):
> #0  0xb771f424 in __kernel_vsyscall ()
> #1  0xb3e83e7b in waitpid () at ../sysdeps/unix/syscall-template.S:81
> #2  0xb3e0dfcd in do_system (line=line
> entry=0xa9dcc70 "/home/imen/root/etc/gdb-backtrace.sh 5250 1>&2") at
> ../sysdeps/posix/system.c:148
> #3  0xb3e0e3d0 in __libc_system (line=line
> entry=0xa9dcc70 "/home/imen/root/etc/gdb-backtrace.sh 5250 1>&2") at
> ../sysdeps/posix/system.c:184
> #4  0xb3f8d10b in system (line=0xa9dcc70 "/home/imen/root/etc/gdb-backtrace.sh
> 5250 1>&2") at pt-system.c:28
> #5  0xb50b5a3b in TUnixSystem::Exec(char const*) () from
> /home/imen/root/lib/libCore.so
> #6  0xb50b9742 in TUnixSystem::StackTrace() () from /home/imen/root/lib/libCore.so
> #7  0xb50bb807 in TUnixSystem::DispatchSignals(ESignals) () from
> /home/imen/root/lib/libCore.so
> #8  0xb50bb93b in SigHandler(ESignals) () from /home/imen/root/lib/libCore.so
> #9  0xb50b4912 in sighandler(int) () from /home/imen/root/lib/libCore.so
> #10 <signal handler called>
> #11 0xb56598d6 in CLHEP::MTwistEngine::showStatus() const () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4clhep.so
> #12 0x08478693 in GateApplicationMgr::StartDAQ() ()
> #13 0x0847e620 in GateApplicationMgrMessenger::SetNewValue(G4UIcommand*,
> G4String) ()
> #14 0xb570d8f6 in G4UIcommand::DoIt(G4String) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #15 0xb57246b7 in G4UImanager::ApplyCommand(char const*) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #16 0xb5724d65 in G4UImanager::ApplyCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #17 0xb56fc797 in G4UIbatch::ExecCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #18 0xb56fdc7c in G4UIbatch::SessionStart() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #19 0xb57208b5 in G4UImanager::ExecuteMacroFile(char const*) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #20 0xb5717bf2 in G4UIcontrolMessenger::SetNewValue(G4UIcommand*, G4String) ()
> from /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #21 0xb570d8f6 in G4UIcommand::DoIt(G4String) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #22 0xb57246b7 in G4UImanager::ApplyCommand(char const*) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #23 0xb5724d65 in G4UImanager::ApplyCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #24 0xb73e85ca in G4VBasicShell::ExecuteCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #25 0xb73ed12e in G4VBasicShell::ApplyShellCommand(G4String const&, bool&,
> bool&) () from /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #26 0xb73dc3ce in G4UIQt::CommandEnteredCallback() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #27 0xb73e4800 in G4UIQt::qt_static_metacall(QObject*, QMetaObject::Call, int,
> void**) [clone .part.0] () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #28 0xb2ee40f7 in QMetaObject::activate(QObject*, QMetaObject const*, int,
> void**) () from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #29 0xb35e8075 in QLineEdit::returnPressed() () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #30 0xb35e84bc in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #31 0xb2ee40f7 in QMetaObject::activate(QObject*, QMetaObject const*, int,
> void**) () from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #32 0xb3877e45 in QLineControl::accepted() () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #33 0xb35efc9f in QLineControl::processKeyEvent(QKeyEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #34 0xb35e402f in QLineEdit::keyPressEvent(QKeyEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #35 0xb31d1252 in QWidget::event(QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #36 0xb35e9f0a in QLineEdit::event(QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #37 0xb31777f4 in QApplicationPrivate::notify_helper(QObject*, QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #38 0xb317fb65 in QApplication::notify(QObject*, QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #39 0xb2ecee4a in QCoreApplication::notifyInternal(QObject*, QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtCore.so.4
> #40 0xb3175c7d in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #41 0xb3229829 in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #42 0xb3229c18 in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #43 0xb31ffda5 in QApplication::x11ProcessEvent(_XEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #44 0xb322c524 in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #45 0xb20671e3 in g_main_context_dispatch () from
> /lib/i386-linux-gnu/libglib-2.0.so.0
> #46 0xb2067468 in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #47 0xb2067528 in g_main_context_iteration () from
> /lib/i386-linux-gnu/libglib-2.0.so.0
> #48 0xb2efe93b in
> QEventDispatcherGlib::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) ()
> from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #49 0xb322c5de in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #50 0xb2ecd823 in
> QEventLoop::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) () from
> /usr/lib/i386-linux-gnu/libQtCore.so.4
> #51 0xb2ecdb49 in QEventLoop::exec(QFlags<QEventLoop::ProcessEventsFlag>) ()
> from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #52 0xb2ed38fe in QCoreApplication::exec() () from
> /usr/lib/i386-linux-gnu/libQtCore.so.4
> #53 0xb3175a24 in QApplication::exec() () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #54 0xb73cf388 in G4UIQt::SessionStart() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #55 0xb73c0972 in G4UIExecutive::SessionStart() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #56 0x08112b14 in main ()
> ===========================================================
>
>
> The lines below might hint at the cause of the crash.
> If they do not help you then please submit a bug report at
> http://root.cern.ch/bugs. Please post the ENTIRE stack trace
> from above as an attachment in addition to anything else
> that might help us fixing this issue.
> ===========================================================
> #11 0xb56598d6 in CLHEP::MTwistEngine::showStatus() const () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4clhep.so
> #12 0x08478693 in GateApplicationMgr::StartDAQ() ()
> #13 0x0847e620 in GateApplicationMgrMessenger::SetNewValue(G4UIcommand*,
> G4String) ()
> #14 0xb570d8f6 in G4UIcommand::DoIt(G4String) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #15 0xb57246b7 in G4UImanager::ApplyCommand(char const*) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #16 0xb5724d65 in G4UImanager::ApplyCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #17 0xb56fc797 in G4UIbatch::ExecCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #18 0xb56fdc7c in G4UIbatch::SessionStart() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #19 0xb57208b5 in G4UImanager::ExecuteMacroFile(char const*) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #20 0xb5717bf2 in G4UIcontrolMessenger::SetNewValue(G4UIcommand*, G4String) ()
> from /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #21 0xb570d8f6 in G4UIcommand::DoIt(G4String) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #22 0xb57246b7 in G4UImanager::ApplyCommand(char const*) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #23 0xb5724d65 in G4UImanager::ApplyCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4intercoms.so
> #24 0xb73e85ca in G4VBasicShell::ExecuteCommand(G4String const&) () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #25 0xb73ed12e in G4VBasicShell::ApplyShellCommand(G4String const&, bool&,
> bool&) () from /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #26 0xb73dc3ce in G4UIQt::CommandEnteredCallback() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #27 0xb73e4800 in G4UIQt::qt_static_metacall(QObject*, QMetaObject::Call, int,
> void**) [clone .part.0] () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #28 0xb2ee40f7 in QMetaObject::activate(QObject*, QMetaObject const*, int,
> void**) () from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #29 0xb35e8075 in QLineEdit::returnPressed() () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #30 0xb35e84bc in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #31 0xb2ee40f7 in QMetaObject::activate(QObject*, QMetaObject const*, int,
> void**) () from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #32 0xb3877e45 in QLineControl::accepted() () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #33 0xb35efc9f in QLineControl::processKeyEvent(QKeyEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #34 0xb35e402f in QLineEdit::keyPressEvent(QKeyEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #35 0xb31d1252 in QWidget::event(QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #36 0xb35e9f0a in QLineEdit::event(QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #37 0xb31777f4 in QApplicationPrivate::notify_helper(QObject*, QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #38 0xb317fb65 in QApplication::notify(QObject*, QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #39 0xb2ecee4a in QCoreApplication::notifyInternal(QObject*, QEvent*) () from
> /usr/lib/i386-linux-gnu/libQtCore.so.4
> #40 0xb3175c7d in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #41 0xb3229829 in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #42 0xb3229c18 in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #43 0xb31ffda5 in QApplication::x11ProcessEvent(_XEvent*) () from
> /usr/lib/i386-linux-gnu/libQtGui.so.4
> #44 0xb322c524 in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #45 0xb20671e3 in g_main_context_dispatch () from
> /lib/i386-linux-gnu/libglib-2.0.so.0
> #46 0xb2067468 in ?? () from /lib/i386-linux-gnu/libglib-2.0.so.0
> #47 0xb2067528 in g_main_context_iteration () from
> /lib/i386-linux-gnu/libglib-2.0.so.0
> #48 0xb2efe93b in
> QEventDispatcherGlib::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) ()
> from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #49 0xb322c5de in ?? () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #50 0xb2ecd823 in
> QEventLoop::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) () from
> /usr/lib/i386-linux-gnu/libQtCore.so.4
> #51 0xb2ecdb49 in QEventLoop::exec(QFlags<QEventLoop::ProcessEventsFlag>) ()
> from /usr/lib/i386-linux-gnu/libQtCore.so.4
> #52 0xb2ed38fe in QCoreApplication::exec() () from
> /usr/lib/i386-linux-gnu/libQtCore.so.4
> #53 0xb3175a24 in QApplication::exec() () from /usr/lib/i386-linux-gnu/libQtGui.so.4
> #54 0xb73cf388 in G4UIQt::SessionStart() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #55 0xb73c0972 in G4UIExecutive::SessionStart() () from
> /home/imen/geant4.9.6/geant4-install/lib/libG4interfaces.so
> #56 0x08112b14 in main ()
> ===========================================================
>
>
> Segmentation fault (core dumped)
>
> thanks!
> Best Regards,
> Imen
>
> ᐧ
>
>
> _______________________________________________
> Gate-users mailing list
> Gate-users at lists.opengatecollaboration.org
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>

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