[MacPorts] #74222: Coot segmentation fault

[MacPorts]

#74222: Coot segmentation fault
-------------------------+------------------------
  Reporter:  mabianchet  |      Owner:  reneeotten
      Type:  defect      |     Status:  assigned
  Priority:  Normal      |  Milestone:
 Component:  ports       |    Version:  2.12.5
Resolution:              |   Keywords:
      Port:  coot        |
-------------------------+------------------------
Changes (by jmroot):

 * owner:  (none) => reneeotten
 * status:  new => assigned


Old description:

> /opt/local/bin/coot
> Stack trace (most recent call last):
> #16   Object "MacCoot", at 0x104a94813, in main + 11
> #15   Object "MacCoot", at 0x104ab922b, in startup(int, char**) + 159
> #14   Object "libgtk-4.1.dylib", at 0x109ae6faf, in gtk_init + 11
> #13   Object "libgtk-4.1.dylib", at 0x109ae6e4b, in gtk_init_check + 339
> #12   Object "libgtk-4.1.dylib", at 0x109d5f663, in
> gdk_display_manager_open_display + 407
> #11   Object "libgtk-4.1.dylib", at 0x109d31223, in gdk_x11_display_open
> + 295
> #10   Object "libgtk-4.1.dylib", at 0x109d5df83, in
> gdk_display_prepare_gl + 223
> #9    Object "libgtk-4.1.dylib", at 0x109d6cc2f, in
> gdk_gl_context_realize + 111
> #8    Object "libgtk-4.1.dylib", at 0x109d342a7, in
> gdk_x11_gl_context_glx_realize + 279
> #7    Object "libgtk-4.1.dylib", at 0x109d34b37, in
> gdk_x11_context_create_glx_context + 451
> #6    Object "libGL.1.dylib", at 0x1135b7f27, in
> glXCreateContextAttribsARB + 391
> #5    Object "libGL.1.dylib", at 0x1135c603b, in applegl_create_context +
> 159
> #4    Object "libGL.1.dylib", at 0x1135e203b, in apple_glx_create_context
> + 219
> #3    Object "libGL.1.dylib", at 0x1135e43b7, in
> apple_visual_create_pfobj + 695
> #2    Object "libsystem_platform.dylib", at 0x18e22d763, in _sigtramp +
> 55
> #1    Object "libcoot-utils.0.dylib", at 0x107b956b3, in
> backward::SignalHandling::sig_handler(int, __siginfo*, void*) + 19
> #0    Object "libcoot-utils.0.dylib", at 0x107b9572f, in
> backward::SignalHandling::handleSignal(int, __siginfo*, void*) + 95
> /opt/local/bin/coot: line 7: 49260 Segmentation fault: 11
> ${exec_prefix}/libexec/MacCoot "$@"
>
> MacPorts 2.12.5
> MacOS 26.3.1 (a) (25D771280a)
> Darwin Mac 25.3.0 Darwin Kernel Version 25.3.0: Wed Jan 28 20:51:28 PST
> 2026; root:xnu-12377.91.3~2/RELEASE_ARM64_T6041 arm64
> Xquartz 2.8.6

New description:

 {{{
 /opt/local/bin/coot
 Stack trace (most recent call last):
 #16   Object "MacCoot", at 0x104a94813, in main + 11
 #15   Object "MacCoot", at 0x104ab922b, in startup(int, char**) + 159
 #14   Object "libgtk-4.1.dylib", at 0x109ae6faf, in gtk_init + 11
 #13   Object "libgtk-4.1.dylib", at 0x109ae6e4b, in gtk_init_check + 339
 #12   Object "libgtk-4.1.dylib", at 0x109d5f663, in
 gdk_display_manager_open_display + 407
 #11   Object "libgtk-4.1.dylib", at 0x109d31223, in gdk_x11_display_open +
 295
 #10   Object "libgtk-4.1.dylib", at 0x109d5df83, in gdk_display_prepare_gl
 + 223
 #9    Object "libgtk-4.1.dylib", at 0x109d6cc2f, in gdk_gl_context_realize
 + 111
 #8    Object "libgtk-4.1.dylib", at 0x109d342a7, in
 gdk_x11_gl_context_glx_realize + 279
 #7    Object "libgtk-4.1.dylib", at 0x109d34b37, in
 gdk_x11_context_create_glx_context + 451
 #6    Object "libGL.1.dylib", at 0x1135b7f27, in
 glXCreateContextAttribsARB + 391
 #5    Object "libGL.1.dylib", at 0x1135c603b, in applegl_create_context +
 159
 #4    Object "libGL.1.dylib", at 0x1135e203b, in apple_glx_create_context
 + 219
 #3    Object "libGL.1.dylib", at 0x1135e43b7, in apple_visual_create_pfobj
 + 695
 #2    Object "libsystem_platform.dylib", at 0x18e22d763, in _sigtramp + 55
 #1    Object "libcoot-utils.0.dylib", at 0x107b956b3, in
 backward::SignalHandling::sig_handler(int, __siginfo*, void*) + 19
 #0    Object "libcoot-utils.0.dylib", at 0x107b9572f, in
 backward::SignalHandling::handleSignal(int, __siginfo*, void*) + 95
 /opt/local/bin/coot: line 7: 49260 Segmentation fault: 11
 ${exec_prefix}/libexec/MacCoot "$@"

 MacPorts 2.12.5
 MacOS 26.3.1 (a) (25D771280a)
 Darwin Mac 25.3.0 Darwin Kernel Version 25.3.0: Wed Jan 28 20:51:28 PST
 2026; root:xnu-12377.91.3~2/RELEASE_ARM64_T6041 arm64
 Xquartz 2.8.6
 }}}

--

-- 
Ticket URL: <https://trac.macports.org/ticket/74222#comment:2>
MacPorts <https://www.macports.org/>
Ports system for macOS