id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 4210 Crash reporting cursor position chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.2.dev202102030836 (2021-02-03 08:36:42 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Bus error Current thread 0x0000000202e6de00 (most recent call first): File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/chimerax/mouse_modes/mousemodes.py"", line 512 in _cursor_position File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/chimerax/mouse_modes/mousemodes.py"", line 470 in mouse_pause_tracking File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/chimerax/core/updateloop.py"", line 139 in _redraw_timer_callback File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/chimerax/ui/gui.py"", line 307 in event_loop File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/ChimeraX_main.py"", line 856 in init File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/ChimeraX_main.py"", line 1005 in File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/runpy.py"", line 87 in _run_code File ""/private/var/folders/kw/6gs1ttkj6wv61qz6jxr44pn00000gn/T/AppTranslocation/47CAF374-3722-4C6E-B49C-D2E60791AB33/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/runpy.py"", line 194 in _run_module_as_main Process: ChimeraX [3536] Path: /private/var/folders/*/ChimeraX_Daily.app/Contents/MacOS/ChimeraX Identifier: edu.ucsf.cgl.ChimeraX Version: 1.2.0 (1.2.0.0) Code Type: X86-64 (Translated) Parent Process: ??? [1] Responsible: ChimeraX [3536] User ID: 501 Date/Time: 2021-02-03 23:21:44.064 +0000 OS Version: macOS 11.2 (20D64) Report Version: 12 Anonymous UUID: E1B98252-BF9F-4974-9697-8E48AA062C5B Sleep/Wake UUID: 256749D5-C952-46BF-AE3A-96C576880C5C Time Awake Since Boot: 15000 seconds Time Since Wake: 9300 seconds System Integrity Protection: enabled Crashed Thread: 0 CrBrowserMain Dispatch queue: com.apple.main-thread Exception Type: EXC_BAD_ACCESS (SIGBUS) Exception Codes: KERN_MEMORY_ERROR at 0x0000000149542020 Exception Note: EXC_CORPSE_NOTIFY VM Regions Near 0x149542020: VM_ALLOCATE 1493f0000-1493f8000 [ 32K] r--/r-- SM=ALI --> mapped file 1493f8000-149567000 [ 1468K] r-x/rwx SM=COW Object_id=552cd625 mapped file 149567000-14957f000 [ 96K] rw-/rwx SM=COW Object_id=55b9f425 Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff20364462 __pthread_kill + 10 2 libsystem_c.dylib 0x00007fff20274ba3 raise + 26 3 libsystem_platform.dylib 0x00007fff203d6d7d _sigtramp + 29 4 select.cpython-38-darwin.so 000000000000000000 0 + 0 5 ??? 0x00006000038a9010 ??? Thread 1:: com.apple.rosetta.exceptionserver 0 runtime 0x00007ffdfff1a238 0x7ffdfff18000 + 8760 1 runtime 0x00007ffdfff24354 0x7ffdfff18000 + 50004 2 runtime 0x00007ffdfff251f8 0x7ffdfff18000 + 53752 Thread 2: 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000010cf6927b ??? 3 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 4 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 3: 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000010cf6927b ??? 3 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 4 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 4: 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000010cf6927b ??? 3 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 4 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 5: 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000010cf6927b ??? 3 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 4 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 6: 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000010cf6927b ??? 3 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 4 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 7: 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000010cf6927b ??? 3 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 4 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 8: 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000010cf6927b ??? 3 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 4 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 9:: com.apple.NSEventThread 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 com.apple.CoreFoundation 0x00007fff2048a50d __CFRunLoopServiceMachPort + 316 3 com.apple.CoreFoundation 0x00007fff20488bf6 __CFRunLoopRun + 1319 4 com.apple.CoreFoundation 0x00007fff20487fe2 CFRunLoopRunSpecific + 567 5 ??? 0x00007fff22d637c6 ??? 6 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 7 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 10:: ThreadPoolServiceThread 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff20366dde kevent64 + 10 2 ??? 0x000000012ca68cc7 ??? 3 ??? 0x000000012c9f162b ??? 4 ??? 0x000000012c9b57cb ??? 5 ??? 0x000000012c9fca94 ??? 6 ??? 0x000000012ca10a7d ??? 7 ??? 0x000000012ca59e07 ??? 8 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 9 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 11:: ThreadPoolBackgroundWorker 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca06778 ??? 4 ??? 0x000000012ca07150 ??? 5 ??? 0x000000012ca06c44 ??? 6 ??? 0x000000012ca59e07 ??? 7 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 8 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 12:: Chrome_IOThread 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff20366dde kevent64 + 10 2 ??? 0x000000012ca68cc7 ??? 3 ??? 0x000000012c9f162b ??? 4 ??? 0x000000012c9b57cb ??? 5 ??? 0x0000000130935f06 ??? 6 ??? 0x000000012ca10a7d ??? 7 ??? 0x000000012ca59e07 ??? 8 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 9 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 13:: NetworkConfigWatcher 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012c9861db ??? 5 ??? 0x000000012c9f162b ??? 6 ??? 0x000000012c9b57cb ??? 7 ??? 0x000000012ca10a7d ??? 8 ??? 0x000000012ca59e07 ??? 9 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 10 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 14:: ThreadPoolForegroundWorker 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca06778 ??? 4 ??? 0x000000012ca07150 ??? 5 ??? 0x000000012ca06cd4 ??? 6 ??? 0x000000012ca59e07 ??? 7 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 8 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 15:: CompositorTileWorker1 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff203608e2 __psynch_cvwait + 10 2 ??? 0x000000012ca55e18 ??? 3 ??? 0x000000012dd0d5f8 ??? 4 ??? 0x000000012ca59e07 ??? 5 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 6 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 16:: Chrome_InProcGpuThread 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012c98620f ??? 4 ??? 0x000000012c9f162b ??? 5 ??? 0x000000012c9b57cb ??? 6 ??? 0x000000012ca10a7d ??? 7 ??? 0x000000012ca59e07 ??? 8 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 9 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 17:: Chrome_ChildIOThread 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff20366dde kevent64 + 10 2 ??? 0x000000012ca68cc7 ??? 3 ??? 0x000000012c9f162b ??? 4 ??? 0x000000012c9b57cb ??? 5 ??? 0x000000012ca10a7d ??? 6 ??? 0x000000012ca59e07 ??? 7 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 8 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 18:: VizCompositorThread 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012c9861db ??? 5 ??? 0x000000012c9f162b ??? 6 ??? 0x000000012c9b57cb ??? 7 ??? 0x000000012ca10a7d ??? 8 ??? 0x000000012ca59e07 ??? 9 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 10 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 19:: NetworkConfigWatcher 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012c9861db ??? 5 ??? 0x000000012c9f162b ??? 6 ??? 0x000000012c9b57cb ??? 7 ??? 0x000000012ca10a7d ??? 8 ??? 0x000000012ca59e07 ??? 9 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 10 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 20:: NetworkConfigWatcher 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012c9861db ??? 5 ??? 0x000000012c9f162b ??? 6 ??? 0x000000012c9b57cb ??? 7 ??? 0x000000012ca10a7d ??? 8 ??? 0x000000012ca59e07 ??? 9 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 10 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 21:: ThreadPoolSingleThreadForegroundBlocking0 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012ca0676a ??? 5 ??? 0x000000012ca07150 ??? 6 ??? 0x000000012ca06d34 ??? 7 ??? 0x000000012ca59e07 ??? 8 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 9 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 22:: MemoryInfra 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012c9861db ??? 5 ??? 0x000000012c9f162b ??? 6 ??? 0x000000012c9b57cb ??? 7 ??? 0x000000012ca10a7d ??? 8 ??? 0x000000012ca59e07 ??? 9 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 10 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 23:: NetworkConfigWatcher 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012c9861db ??? 5 ??? 0x000000012c9f162b ??? 6 ??? 0x000000012c9b57cb ??? 7 ??? 0x000000012ca10a7d ??? 8 ??? 0x000000012ca59e07 ??? 9 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 10 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 24:: ThreadPoolSingleThreadSharedBackgroundBlocking1 0 ??? 0x00007ffe963aeab8 ??? 1 libsystem_kernel.dylib 0x00007fff2035de7e mach_msg_trap + 10 2 ??? 0x000000012ca5e492 ??? 3 ??? 0x000000012ca5e2cf ??? 4 ??? 0x000000012ca0676a ??? 5 ??? 0x000000012ca06e3d ??? 6 ??? 0x000000012ca06c74 ??? 7 ??? 0x000000012ca59e07 ??? 8 libsystem_pthread.dylib 0x00007fff20392950 _pthread_start + 224 9 libsystem_pthread.dylib 0x00007fff2038e47b thread_start + 15 Thread 25: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 26: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 27: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 28: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 29: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 30: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 31: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 32: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 33: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 34: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 35: 0 runtime 0x00007ffdfff7299c 0x7ffdfff18000 + 371100 Thread 0 crashed with X86 Thread State (64-bit): rax: 0x0000000000000000 rbx: 0x0000000202e6de00 rcx: 0x0000000000000000 rdx: 0x0000000000000000 rdi: 0xfb90a6f05e5782c2 rsi: 0x000000011d190088 rbp: 0xfb90a6f05e5782c2 rsp: 0x000000011d190088 r8: 0x000000000000000a r9: 0xfb90a6f05e5782c2 r10: 0x0000000202e6de00 r11: 0x00007fff20274b89 r12: 0x0000000000000203 r13: 0x0000000000000003 r14: 0x000000000000000a r15: 0x0000000000000016 rip: rfl: 0x0000000000000283 Binary Images: 0 - 0xffffffffffffffff +select.cpython-38-darwin.so (???) /private/var/folders/*/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/lib-dynload/select.cpython-38-darwin.so 0x202d96000 - 0x202e31fff dyld (832.7.3) /usr/lib/dyld 0x7ffdfff18000 - 0x7ffdfff8bfff +runtime (203.30) /Library/Apple/*/runtime 0x7fff200c6000 - 0x7fff200c7fff libsystem_blocks.dylib (78) /usr/lib/system/libsystem_blocks.dylib 0x7fff200c8000 - 0x7fff200fdfff libxpc.dylib (2038.80.3) /usr/lib/system/libxpc.dylib 0x7fff200fe000 - 0x7fff20115fff libsystem_trace.dylib (1277.80.2) /usr/lib/system/libsystem_trace.dylib 0x7fff20116000 - 0x7fff201b5fff libcorecrypto.dylib (1000.80.5) /usr/lib/system/libcorecrypto.dylib 0x7fff201b6000 - 0x7fff201e2fff libsystem_malloc.dylib (317.40.8) /usr/lib/system/libsystem_malloc.dylib 0x7fff201e3000 - 0x7fff20227fff libdispatch.dylib (1271.40.12) /usr/lib/system/libdispatch.dylib 0x7fff20228000 - 0x7fff20261fff libobjc.A.dylib (818.2) /usr/lib/libobjc.A.dylib 0x7fff20262000 - 0x7fff20264fff libsystem_featureflags.dylib (28.60.1) /usr/lib/system/libsystem_featureflags.dylib 0x7fff20265000 - 0x7fff202edfff libsystem_c.dylib (1439.40.11) /usr/lib/system/libsystem_c.dylib 0x7fff202ee000 - 0x7fff20343fff libc++.1.dylib (904.4) /usr/lib/libc++.1.dylib 0x7fff20344000 - 0x7fff2035cfff libc++abi.dylib (904.4) /usr/lib/libc++abi.dylib 0x7fff2035d000 - 0x7fff2038bfff libsystem_kernel.dylib (7195.81.3) /usr/lib/system/libsystem_kernel.dylib 0x7fff2038c000 - 0x7fff20397fff libsystem_pthread.dylib (454.80.2) /usr/lib/system/libsystem_pthread.dylib 0x7fff20398000 - 0x7fff203d2fff libdyld.dylib (832.7.3) /usr/lib/system/libdyld.dylib 0x7fff203d3000 - 0x7fff203dcfff libsystem_platform.dylib (254.80.2) /usr/lib/system/libsystem_platform.dylib 0x7fff203dd000 - 0x7fff20408fff libsystem_info.dylib (542.40.3) /usr/lib/system/libsystem_info.dylib 0x7fff20409000 - 0x7fff208a4fff com.apple.CoreFoundation (6.9 - 1774.101) /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation 0x7fff224ca000 - 0x7fff2272bfff libicucore.A.dylib (66109) /usr/lib/libicucore.A.dylib 0x7fff2272c000 - 0x7fff22735fff libsystem_darwin.dylib (1439.40.11) /usr/lib/system/libsystem_darwin.dylib 0x7fff22b47000 - 0x7fff22b52fff libsystem_notify.dylib (279.40.4) /usr/lib/system/libsystem_notify.dylib 0x7fff24aa3000 - 0x7fff24ab1fff libsystem_networkextension.dylib (1295.80.3) /usr/lib/system/libsystem_networkextension.dylib 0x7fff24b0f000 - 0x7fff24b25fff libsystem_asl.dylib (385) /usr/lib/system/libsystem_asl.dylib 0x7fff2623d000 - 0x7fff26244fff libsystem_symptoms.dylib (1431.40.36) /usr/lib/system/libsystem_symptoms.dylib 0x7fff2856f000 - 0x7fff2857ffff libsystem_containermanager.dylib (318.80.2) /usr/lib/system/libsystem_containermanager.dylib 0x7fff29283000 - 0x7fff29286fff libsystem_configuration.dylib (1109.60.2) /usr/lib/system/libsystem_configuration.dylib 0x7fff29287000 - 0x7fff2928bfff libsystem_sandbox.dylib (1441.60.4) /usr/lib/system/libsystem_sandbox.dylib 0x7fff29e96000 - 0x7fff29e98fff libquarantine.dylib (119.40.2) /usr/lib/system/libquarantine.dylib 0x7fff2a40b000 - 0x7fff2a418fff libbz2.1.0.dylib (44) /usr/lib/libbz2.1.0.dylib 0x7fff2a419000 - 0x7fff2a41dfff libsystem_coreservices.dylib (127) /usr/lib/system/libsystem_coreservices.dylib 0x7fff2a621000 - 0x7fff2a633fff libz.1.dylib (76) /usr/lib/libz.1.dylib 0x7fff2a634000 - 0x7fff2a67ffff libsystem_m.dylib (3186.40.2) /usr/lib/system/libsystem_m.dylib 0x7fff2a681000 - 0x7fff2a686fff libmacho.dylib (973.4) /usr/lib/system/libmacho.dylib 0x7fff2a6a3000 - 0x7fff2a6aefff libcommonCrypto.dylib (60178.40.2) /usr/lib/system/libcommonCrypto.dylib 0x7fff2a6af000 - 0x7fff2a6b9fff libunwind.dylib (200.10) /usr/lib/system/libunwind.dylib 0x7fff2a6ba000 - 0x7fff2a6c1fff liboah.dylib (203.30) /usr/lib/liboah.dylib 0x7fff2a6c2000 - 0x7fff2a6ccfff libcopyfile.dylib (173.40.2) /usr/lib/system/libcopyfile.dylib 0x7fff2a6cd000 - 0x7fff2a6d4fff libcompiler_rt.dylib (102.2) /usr/lib/system/libcompiler_rt.dylib 0x7fff2a6d5000 - 0x7fff2a6d7fff libsystem_collections.dylib (1439.40.11) /usr/lib/system/libsystem_collections.dylib 0x7fff2a6d8000 - 0x7fff2a6dafff libsystem_secinit.dylib (87.60.1) /usr/lib/system/libsystem_secinit.dylib 0x7fff2a6db000 - 0x7fff2a6ddfff libremovefile.dylib (49.40.3) /usr/lib/system/libremovefile.dylib 0x7fff2a6de000 - 0x7fff2a6defff libkeymgr.dylib (31) /usr/lib/system/libkeymgr.dylib 0x7fff2a6df000 - 0x7fff2a6e6fff libsystem_dnssd.dylib (1310.80.1) /usr/lib/system/libsystem_dnssd.dylib 0x7fff2a6e7000 - 0x7fff2a6ecfff libcache.dylib (83) /usr/lib/system/libcache.dylib 0x7fff2a6ed000 - 0x7fff2a6eefff libSystem.B.dylib (1292.60.1) /usr/lib/libSystem.B.dylib 0x7fff2a6ef000 - 0x7fff2a6f2fff libfakelink.dylib (3) /usr/lib/libfakelink.dylib 0x7fff2a6f3000 - 0x7fff2a6f3fff com.apple.SoftLinking (1.0 - 1) /System/Library/PrivateFrameworks/SoftLinking.framework/Versions/A/SoftLinking 0x7fff2dc82000 - 0x7fff2dc82fff liblaunch.dylib (2038.80.3) /usr/lib/system/liblaunch.dylib 0x7fff30136000 - 0x7fff30136fff libsystem_product_info_filter.dylib (8.40.1) /usr/lib/system/libsystem_product_info_filter.dylib Translated Code Information: tmp0: 0xffffffffffffffff tmp1: 0x00007ffe963aea8c tmp2: 0x00007fff20364458 External Modification Summary: Calls made by other processes targeting this process: task_for_pid: 0 thread_create: 0 thread_set_state: 0 Calls made by this process: task_for_pid: 0 thread_create: 0 thread_set_state: 0 Calls made by all processes on this machine: task_for_pid: 10991 thread_create: 0 thread_set_state: 0 VM Region Summary: ReadOnly portion of Libraries: Total=518.5M resident=0K(0%) swapped_out_or_unallocated=518.5M(100%) Writable regions: Total=2.1G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=2.1G(100%) VIRTUAL REGION REGION TYPE SIZE COUNT (non-coalesced) =========== ======= ======= Accelerate framework 384K 3 Activity Tracing 256K 1 CG backing stores 1152K 6 CG image 88K 22 CoreAnimation 104K 19 CoreGraphics 12K 2 CoreUI image data 1816K 26 Foundation 16K 1 Kernel Alloc Once 336K 3 MALLOC 363.2M 70 MALLOC guard page 192K 8 MALLOC_MEDIUM (reserved) 896.0M 8 reserved VM address space (unallocated) MALLOC_NANO (reserved) 384.0M 1 reserved VM address space (unallocated) Mach message 24K 6 OpenGL GLSL 384K 4 Rosetta Arena 2048K 1 Rosetta Generic 1728K 429 Rosetta IndirectBranch 2048K 1 Rosetta JIT 128.0M 1 Rosetta Return Stack 680K 68 Rosetta Thread Context 680K 68 STACK GUARD 44K 11 Stack 137.6M 35 Stack Guard 56.1M 24 VM_ALLOCATE 98.7M 186 VM_ALLOCATE (reserved) 160.0M 8 reserved VM address space (unallocated) __DATA 489K 51 __DATA_CONST 2987K 40 __DATA_DIRTY 95K 23 __LINKEDIT 506.0M 5 __OBJC_RO 60.5M 1 __OBJC_RW 2449K 2 __TEXT 12.5M 50 __UNICODE 588K 1 dylib 2088K 23 dylib (reserved) 96K 7 reserved VM address space (unallocated) mapped file 5.2G 870 shared memory 2932K 25 unshared pmap 10.3M 6 =========== ======= ======= TOTAL 8.0G 2116 TOTAL, minus reserved VM space 6.6G 2116 Log: UCSF ChimeraX version: 1.2.dev202102030836 (2021-02-03) © 2016-2020 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 71.0.7 OpenGL renderer: Apple M1 OpenGL vendor: AppleHardware: Hardware Overview: Model Name: Mac mini Model Identifier: Macmini9,1 Processor Name: Unknown Processor Speed: 2.4 GHz Number of Processors: 1 Total Number of Cores: 8 L2 Cache (per Core): 4 MB Memory: 8 GB Software: System Software Overview: System Version: macOS 11.2 (20D64) Kernel Version: Darwin 20.3.0 Time since boot: 4:20 Graphics/Displays: Apple M1: Chipset Model: Apple M1 Type: GPU Bus: Built-In Total Number of Cores: 8 Vendor: Apple (0x106b) Metal Family: Supported, Metal GPUFamily Apple 7 Displays: LG FULL HD: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 @ 60.00Hz Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Locale: (None, 'UTF-8') PyQt5 5.15.2, Qt 5.15.2 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.2 Babel: 2.9.0 backcall: 0.2.0 blockdiag: 2.0.1 certifi: 2020.12.5 cftime: 1.4.1 chardet: 3.0.4 ChimeraX-AddCharge: 1.0 ChimeraX-AddH: 2.1.3 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.11.1 ChimeraX-AtomicLibrary: 1.2.1 ChimeraX-AtomSearch: 2.0 ChimeraX-AtomSearchLibrary: 1.0 ChimeraX-AxesPlanes: 2.0 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 1.1 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.4 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.1 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.1 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.0 ChimeraX-CommandLine: 1.1.3 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.2.dev202102030836 ChimeraX-CoreFormats: 1.0 ChimeraX-coulombic: 1.0.3 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-DataFormats: 1.1 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1 ChimeraX-DistUI: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0 ChimeraX-FunctionKey: 1.0 ChimeraX-Geometry: 1.1 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.0 ChimeraX-Hbonds: 2.1 ChimeraX-Help: 1.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.0 ChimeraX-ImageFormats: 1.1 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0 ChimeraX-Label: 1.0 ChimeraX-ListInfo: 1.1 ChimeraX-Log: 1.1.1 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.0.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.0 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 1.1 ChimeraX-MDcrds: 2.2 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.0 ChimeraX-mmCIF: 2.2 ChimeraX-MMTF: 2.0 ChimeraX-Modeller: 1.0 ChimeraX-ModelPanel: 1.0.1 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.0 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0 ChimeraX-OpenCommand: 1.5 ChimeraX-PDB: 2.2 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.0.1 ChimeraX-PubChem: 2.0.1 ChimeraX-ReadPbonds: 1.0 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.4 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SeqView: 2.3 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.0 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.0.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.3 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-Struts: 1.0 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.0 ChimeraX-ToolshedUtils: 1.1 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.6 ChimeraX-uniprot: 2.1 ChimeraX-ViewDockX: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0 ChimeraX-WebServices: 1.0 ChimeraX-Zone: 1.0 colorama: 0.4.3 comtypes: 1.1.7 cxservices: 1.0 cycler: 0.10.0 Cython: 0.29.21 decorator: 4.4.2 distlib: 0.3.1 docutils: 0.16 filelock: 3.0.12 flake8: 3.8.3 flake8-polyfill: 1.0.2 funcparserlib: 0.3.6 grako: 3.16.5 h5py: 2.10.0 html2text: 2020.1.16 idna: 2.10 ihm: 0.17 imagecodecs: 2020.5.30 imagesize: 1.2.0 ipykernel: 5.3.4 ipython: 7.18.1 ipython-genutils: 0.2.0 jedi: 0.17.2 Jinja2: 2.11.2 jupyter-client: 6.1.7 jupyter-core: 4.7.1 kiwisolver: 1.3.1 line-profiler: 2.1.2 lxml: 4.6.2 lz4: 3.1.0 MarkupSafe: 1.1.1 matplotlib: 3.3.2 mccabe: 0.6.1 msgpack: 1.0.0 netCDF4: 1.5.4 networkx: 2.5 numexpr: 2.7.2 numpy: 1.19.2 numpydoc: 1.1.0 openvr: 1.14.1501 packaging: 20.9 ParmEd: 3.2.0 parso: 0.7.1 pep8: 1.7.1 pep8-naming: 0.10.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 7.2.0 pip: 20.3.1 pkginfo: 1.5.0.1 prompt-toolkit: 3.0.14 psutil: 5.7.2 ptyprocess: 0.7.0 pycodestyle: 2.6.0 pycollada: 0.7.1 pydicom: 2.0.0 pyflakes: 2.2.0 Pygments: 2.7.1 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 2.4.7 PyQt5-commercial: 5.15.2 PyQt5-sip: 12.8.1 PyQtWebEngine-commercial: 5.15.2 python-dateutil: 2.8.1 pytz: 2020.1 pyzmq: 22.0.2 qtconsole: 4.7.7 QtPy: 1.9.0 RandomWords: 0.3.0 requests: 2.24.0 scipy: 1.5.2 setuptools: 50.3.2 sfftk-rw: 0.6.7.dev1 six: 1.15.0 snowballstemmer: 2.1.0 sortedcontainers: 2.2.2 Sphinx: 3.2.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 2.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 1.0.3 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.4 suds-jurko: 0.6 tables: 3.6.1 tifffile: 2020.9.3 tinyarray: 1.2.3 tornado: 6.1 traitlets: 5.0.5 urllib3: 1.25.11 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.36.0 wheel-filename: 1.2.0 }}} " defect closed normal Graphics can't reproduce all ChimeraX