Hi Torquil, I think the problem is with WXPython or VTK. Please, try to run the code from url https://gitlab.kitware.com/vtk/vtk/raw/5a49848a4978d64eafef825c8c437e9e39bb0ffd/Wrapping/Python/vtk/wx/wxVTKRenderWindowInteractor.py and see if it runs correctly.
$ wget https://gitlab.kitware.com/vtk/vtk/raw/5a49848a4978d64eafef825c8c437e9e39bb0ffd/Wrapping/Python/vtk/wx/wxVTKRenderWindowInteractor.py $ python wxVTKRenderWindowInteractor.py wxVTKRenderWindowInteractor is the class we use in InVesalius3 to use VTK with WXPython, if you run this code (not import it) it will show a window with a cone. But I don' t know why, outside of KDE when a wxVTKRenderWindowInteractor is instantiated a segmentation fault happens. Also, it' s needed to know if this problem is with libvtk or python-vtk. Best regards. On Fri, Jun 15, 2018 at 6:30 PM Torquil Macdonald Sørensen <torq...@gmail.com> wrote: > > Hi, > > I'm using XFCE4, so that would be xfwm4. I did another thing: > /usr/bin/invesalius3 is a shell script, so I executed those commands > manuall in my shell. But instead of "python app.py", I ran gdb, and then > the gdb commands "file python", "set args app.py", "run". When > invesalius3 then crashed, I could then get a backtrace by running "bt", > It gave the following output: > > (gdb) bt > #0 0x00007ffff3106202 in ?? () from /usr/lib/x86_64-linux-gnu/libgdk-3.so.0 > #1 0x00007ffff313c47e in gdk_x11_window_get_xid () from > /usr/lib/x86_64-linux-gnu/libgdk-3.so.0 > #2 0x00007ffff6021251 in ?? () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_core_.x86_64-linux-gnu.so > #3 0x000055555564f874 in PyEval_EvalFrameEx () > #4 0x0000555555646c7a in PyEval_EvalCodeEx () > #5 0x000055555564edb4 in PyEval_EvalFrameEx () > #6 0x000055555564e3e2 in PyEval_EvalFrameEx () > #7 0x0000555555646c7a in PyEval_EvalCodeEx () > #8 0x0000555555662b09 in ?? () > #9 0x000055555567b2be in ?? () > #10 0x000055555563290e in PyObject_Call () > #11 0x00005555556529f0 in PyEval_CallObjectWithKeywords () > #12 0x00007ffff5fa9e99 in wxPyCallback::EventThunker(wxEvent&) () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_core_.x86_64-linux-gnu.so > #13 0x00007ffff44438ce in > wxEvtHandler::ProcessEventIfMatchesId(wxEventTableEntryBase const&, > wxEvtHandler*, wxEvent&) () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #14 0x00007ffff4443cda in > wxEvtHandler::SearchDynamicEventTable(wxEvent&) () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #15 0x00007ffff4443d6f in wxEvtHandler::TryHereOnly(wxEvent&) () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #16 0x00007ffff4443e23 in wxEvtHandler::ProcessEventLocally(wxEvent&) () > from /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #17 0x00007ffff4443e85 in wxEvtHandler::ProcessEvent(wxEvent&) () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #18 0x00007ffff4443be7 in wxEvtHandler::SafelyProcessEvent(wxEvent&) () > from /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #19 0x00007ffff4dd4557 in wxWindow::DoSetSize(int, int, int, int, int) > () from /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #20 0x00007ffff4f6329a in wxBoxSizer::RecalcSizes() () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #21 0x00007ffff4f6111e in wxSizer::Layout() () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #22 0x00007ffff4f60fb5 in wxSizerItem::SetDimension(wxPoint const&, > wxSize const&) () from /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #23 0x00007ffff4f6329a in wxBoxSizer::RecalcSizes() () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #24 0x00007ffff4f6111e in wxSizer::Layout() () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #25 0x00007ffff4f95436 in wxWindowBase::Layout() () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #26 0x00007ffff4f8fe66 in wxWindowBase::InternalOnSize(wxSizeEvent&) () > from /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #27 0x00007ffff44438ce in > wxEvtHandler::ProcessEventIfMatchesId(wxEventTableEntryBase const&, > wxEvtHandler*, wxEvent&) () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #28 0x00007ffff44439d3 in wxEventHashTable::HandleEvent(wxEvent&, > wxEvtHandler*) () from /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #29 0x00007ffff4443d9b in wxEvtHandler::TryHereOnly(wxEvent&) () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #30 0x00007ffff4443e23 in wxEvtHandler::ProcessEventLocally(wxEvent&) () > from /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #31 0x00007ffff4443e85 in wxEvtHandler::ProcessEvent(wxEvent&) () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #32 0x00007ffff4443be7 in wxEvtHandler::SafelyProcessEvent(wxEvent&) () > from /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #33 0x00007ffff4dd4557 in wxWindow::DoSetSize(int, int, int, int, int) > () from /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #34 0x00007ffff4dd661d in wxWindow::DoSetClientSize(int, int) () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #35 0x00007ffff4f649a7 in wxSizer::Fit(wxWindow*) () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #36 0x00007ffff6043941 in ?? () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_core_.x86_64-linux-gnu.so > #37 0x000055555564f874 in PyEval_EvalFrameEx () > #38 0x0000555555646c7a in PyEval_EvalCodeEx () > #39 0x000055555564edb4 in PyEval_EvalFrameEx () > #40 0x000055555564e3e2 in PyEval_EvalFrameEx () > #41 0x0000555555646c7a in PyEval_EvalCodeEx () > #42 0x0000555555662b09 in ?? () > #43 0x000055555567b2be in ?? () > #44 0x000055555567aeca in ?? () > #45 0x0000555555637afb in ?? () > #46 0x000055555564e5d0 in PyEval_EvalFrameEx () > #47 0x000055555564e3e2 in PyEval_EvalFrameEx () > #48 0x0000555555646c7a in PyEval_EvalCodeEx () > #49 0x0000555555662b09 in ?? () > #50 0x000055555567b2be in ?? () > #51 0x000055555567aeca in ?? () > #52 0x0000555555637afb in ?? () > #53 0x000055555564e5d0 in PyEval_EvalFrameEx () > #54 0x000055555564e3e2 in PyEval_EvalFrameEx () > #55 0x0000555555646c7a in PyEval_EvalCodeEx () > #56 0x0000555555662b09 in ?? () > #57 0x000055555567b2be in ?? () > #58 0x000055555567aeca in ?? () > #59 0x0000555555637afb in ?? () > #60 0x000055555564e5d0 in PyEval_EvalFrameEx () > #61 0x0000555555646c7a in PyEval_EvalCodeEx () > #62 0x0000555555662d9d in ?? () > #63 0x000055555563290e in PyObject_Call () > #64 0x000055555564b6d3 in PyEval_EvalFrameEx () > #65 0x000055555564e3e2 in PyEval_EvalFrameEx () > #66 0x0000555555646c7a in PyEval_EvalCodeEx () > #67 0x0000555555662b09 in ?? () > #68 0x000055555567b2be in ?? () > #69 0x000055555563290e in PyObject_Call () > #70 0x00005555556529f0 in PyEval_CallObjectWithKeywords () > #71 0x00007ffff5fa915e in wxPyCallbackHelper::callCallbackObj(_object*) > const () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_core_.x86_64-linux-gnu.so > #72 0x00007ffff5fa91cd in wxPyCallbackHelper::callCallback(_object*) > const () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_core_.x86_64-linux-gnu.so > #73 0x00007fffe8a05f03 in wxPyTimer::Notify() () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_misc_.x86_64-linux-gnu.so > #74 0x00007ffff4dcc2c1 in ?? () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #75 0x00007ffff241bb73 in ?? () from > /usr/lib/x86_64-linux-gnu/libglib-2.0.so.0 > #76 0x00007ffff241b0f5 in g_main_context_dispatch () from > /usr/lib/x86_64-linux-gnu/libglib-2.0.so.0 > #77 0x00007ffff241b4c0 in ?? () from > /usr/lib/x86_64-linux-gnu/libglib-2.0.so.0 > #78 0x00007ffff241b7d2 in g_main_loop_run () from > /usr/lib/x86_64-linux-gnu/libglib-2.0.so.0 > #79 0x00007ffff35e3e85 in gtk_main () from > /usr/lib/x86_64-linux-gnu/libgtk-3.so.0 > #80 0x00007ffff4db9cc5 in wxGUIEventLoop::DoRun() () from > /usr/lib/x86_64-linux-gnu/libwx_gtk3u_core-3.0.so.0 > #81 0x00007ffff42ffea3 in wxEventLoopBase::Run() () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #82 0x00007ffff42c74b6 in wxAppConsoleBase::MainLoop() () from > /usr/lib/x86_64-linux-gnu/libwx_baseu-3.0.so.0 > #83 0x00007ffff5faf027 in wxPyApp::MainLoop() () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_core_.x86_64-linux-gnu.so > #84 0x00007ffff600ad45 in ?? () from > /usr/lib/python2.7/dist-packages/wx-3.0-gtk3/wx/_core_.x86_64-linux-gnu.so > #85 0x000055555564f874 in PyEval_EvalFrameEx () > #86 0x0000555555646c7a in PyEval_EvalCodeEx () > #87 0x0000555555662b09 in ?? () > #88 0x000055555567b2be in ?? () > #89 0x000055555564e5d0 in PyEval_EvalFrameEx () > #90 0x000055555564e3e2 in PyEval_EvalFrameEx () > #91 0x000055555564e3e2 in PyEval_EvalFrameEx () > #92 0x0000555555646c7a in PyEval_EvalCodeEx () > #93 0x0000555555646709 in PyEval_EvalCode () > #94 0x000055555567771f in ?? () > #95 0x0000555555672472 in PyRun_FileExFlags () > #96 0x00005555556718ed in PyRun_SimpleFileExFlags () > #97 0x0000555555620a2b in Py_Main () > #98 0x00007ffff6e69a87 in __libc_start_main () from > /lib/x86_64-linux-gnu/libc.so.6 > #99 0x00005555556202aa in _start () > (gdb) quit > > if this is useful... > > Best regards, > Torquil Sørensen > > On 15/06/18 23:19, Thiago Franco Moraes wrote: > > Hi, > > > > What window manager are your using? I don't why yet, but this error > > doesn't happen if you use KDE as window manager. It's happening also > > with the git version (https://github.com/invesalius/invesalius3). If > > you use the WXPython4 this doesn't happen, but you need to use the git > > version. > > > > Thanks for the bug report. > > On Thu, Jun 14, 2018 at 3:27 PM Torquil Macdonald Sørensen > > <torq...@gmail.com> wrote: > >> Package: invesalius > >> Version: 3.1.1-3 > >> Severity: grave > >> Justification: renders package unusable > >> > >> When trying to run invesalius, I get this segmentation fault: > >> > >> torquil@lenovo-p51:~$ invesalius3 > >> /usr/share/invesalius/invesalius/data/transformations.py:1899: > >> UserWarning: failed to import module _transformations > >> warnings.warn("failed to import module %s" % name) > >> session mode: 0 > >> Segmentation fault > >> torquil@lenovo-p51:~$ > >> > >> Best regards, > >> Torquil Sørensen > >> > >> -- System Information: > >> Debian Release: buster/sid > >> APT prefers unstable > >> APT policy: (500, 'unstable') > >> Architecture: amd64 (x86_64) > >> > >> Kernel: Linux 4.16.0-2-amd64 (SMP w/8 CPU cores) > >> Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8), > >> LANGUAGE=en_GB:en (charmap=UTF-8) > >> Shell: /bin/sh linked to /bin/dash > >> Init: systemd (via /run/systemd/system) > >> > >> Versions of packages invesalius depends on: > >> ii invesalius-bin 3.1.1-3 > >> ii python 2.7.15-3 > >> ii python-concurrent.futures 3.2.0-1 > >> ii python-configparser 3.5.0-1 > >> ii python-gdcm 2.8.6-2 > >> ii python-nibabel 2.3.0-1 > >> ii python-numpy 1:1.14.5-1 > >> ii python-pil 5.1.0-1 > >> ii python-psutil 5.4.6-1 > >> ii python-scipy 0.19.1-2 > >> ii python-serial 3.4-3 > >> ii python-skimage 0.13.1-3 > >> ii python-vtk6 6.3.0+dfsg2-2+b2 > >> ii python-vtkgdcm 2.8.6-2 > >> ii python-wxgtk3.0 3.0.2.0+dfsg-8 > >> ii python2.7 2.7.15-1 > >> > >> invesalius recommends no packages. > >> > >> invesalius suggests no packages. > >> > >> -- no debconf information >
