Crash when changing residue # with Hotkeys version 1.1.20 #274
Description
Hello All,
I am new to coot and I recently updated my coot version from 1.1.19 -> 1.1.20. I have been creating a model from Alphafold generated *.cif files. I updated mid-model creation because in the previous version 1.1.19 the renumber residue range suddenly stopped working.
The issue being (not the most consistent bug to reproduce , but happens 80% of the time). When I use hotkeys loop from either the start of the peptide to the end or vice versa, I get a crash.
Also p.s. Thank you Paul for fixing undo, that was getting to me when I was using 1.1.19
I have tried a few fixes
- changing from *.cif -> *.pdb
- Reinstalling
- Adding
export DYLD_FALLBACK_LIBRARY_PATH="/opt/homebrew/lib:${DYLD_FALLBACK_LIBRARY_PATH}"
to /opt/bin/coot to try and fix the gtk library issue, which previous issue on this thread recommends.
*Edit
Forgot a couple of details.
I am on MacOS v 26.0.1
Installed from homebrew
Here is the crash log
Stack trace (most recent call last):
#31 Object "libgio-2.0.0.dylib", at 0x1080654db, in g_application_run + 515
#30 Object "libglib-2.0.0.dylib", at 0x1081f9963, in g_main_context_iteration + 59
#29 Object "libglib-2.0.0.dylib", at 0x1081f9903, in g_main_context_iterate_unlocked + 483
#28 Object "libglib-2.0.0.dylib", at 0x1081f95ef, in g_main_context_dispatch_unlocked + 239
#27 Object "libgtk-4.1.dylib", at 0x10875f73f, in gdk_macos_event_source_dispatch + 43
#26 Object "libgtk-4.1.dylib", at 0x1087a802b, in gdk_surface_handle_event + 359
#25 Object "libgobject-2.0.0.dylib", at 0x107882b47, in g_signal_emit + 27
#24 Object "libgobject-2.0.0.dylib", at 0x107882023, in g_signal_emit_valist + 63
#23 Object "libgobject-2.0.0.dylib", at 0x1078823ab, in signal_emit_valist_unlocked + 859
#22 Object "libgobject-2.0.0.dylib", at 0x10786e667, in _g_closure_invoke_va + 211
#21 Object "libgtk-4.1.dylib", at 0x1087a8e13, in gdk_surface_event_marshallerv + 103
#20 Object "libgtk-4.1.dylib", at 0x10875230f, in _gdk_marshal_BOOLEAN__POINTERv + 75
#19 Object "libgtk-4.1.dylib", at 0x1085489af, in gtk_main_do_event + 3055
#18 Object "libgtk-4.1.dylib", at 0x108548fcb, in gtk_propagate_event_internal + 335
#17 Object "libgtk-4.1.dylib", at 0x1085fd487, in gtk_widget_run_controllers + 239
#16 Object "libgtk-4.1.dylib", at 0x1084e2a2b, in gtk_event_controller_handle_event + 239
#15 Object "libgtk-4.1.dylib", at 0x1084e4137, in gtk_event_controller_key_handle_event + 243
#14 Object "libgobject-2.0.0.dylib", at 0x107882b47, in g_signal_emit + 27
#13 Object "libgobject-2.0.0.dylib", at 0x107882023, in g_signal_emit_valist + 63
#12 Object "libgobject-2.0.0.dylib", at 0x1078823ab, in signal_emit_valist_unlocked + 859
#11 Object "libgobject-2.0.0.dylib", at 0x10786e667, in _g_closure_invoke_va + 211
#10 Object "libgtk-4.1.dylib", at 0x108479a73, in _gtk_marshal_BOOLEAN__UINT_UINT_FLAGSv + 103
#9 Object "MacCoot", at 0x10261a80f, in on_glarea_key_controller_key_pressed(_GtkEventControllerKey*, unsigned int, unsigned int, unsigned int, _GtkButton*) + 51
#8 Object "libcootsumo.0.dylib", at 0x1033168d7, in graphics_info_t::on_glarea_key_controller_key_pressed(_GtkEventControllerKey*, unsigned int, unsigned int, unsigned int) + 491
#7 Object "libcootsumo.0.dylib", at 0x103412597, in key_bindings_t::run() const + 39
#6 Object "libcootsumo.0.dylib", at 0x10339c3c3, in graphics_info_t::setup_key_bindings()::$_30::__invoke() + 155
#5 Object "libcootsumo.0.dylib", at 0x1033b9793, in graphics_info_t::intelligent_previous_atom_centring(_GtkWidget*) + 55
#4 Object "libcootsumo.0.dylib", at 0x1033b9523, in graphics_info_t::intelligent_near_atom_centring(_GtkWidget*, std::__1::basic_string<char, std::__1::char_traits, std::__1::allocator> const&) + 755
#3 Object "libsystem_platform.dylib", at 0x18393e743, in _sigtramp + 55
#2 Object "libcoot-utils.0.dylib", at 0x1073d967b, in backward::SignalHandling::sig_handler(int, __siginfo*, void*) + 19
#1 Object "libcoot-utils.0.dylib", at 0x1073d96df, in backward::SignalHandling::handleSignal(int, __siginfo*, void*) + 71
#0 Object "libcoot-utils.0.dylib", at 0x1073d981f, in backward::StackTraceImplbackward::system_tag::darwin_tag::load_from(void*, unsigned long, void*, void*) + 43
/opt/homebrew/bin/coot: line 8: 72318 Segmentation fault: 11