id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 7107 Crash in QMainWindow::removeDockWidget( chimerax-bug-report@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-10.15.5-x86_64-i386-64bit ChimeraX Version: 1.4 (2022-06-03 23:39:42 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Process: ChimeraX [5109] Path: /Volumes/VOLUME/*/ChimeraX-1.4.app/Contents/MacOS/ChimeraX Identifier: edu.ucsf.cgl.ChimeraX Version: 1.4.0 (1.4.0.0) Code Type: X86-64 (Native) Parent Process: ??? [1] Responsible: ChimeraX [5109] User ID: 501 Date/Time: 2022-06-15 16:48:04.517 +0800 OS Version: Mac OS X 10.15.5 (19F101) Report Version: 12 Bridge OS Version: 4.5 (17P5300) Anonymous UUID: 1606F7BE-A30F-BDD6-98C2-51F5C3803CD6 Sleep/Wake UUID: 9950D0EC-047B-4CA7-BA91-6BBF93689AB3 Time Awake Since Boot: 360000 seconds Time Since Wake: 2600 seconds System Integrity Protection: enabled Notes: Translocated Process Crashed Thread: 0 CrBrowserMain Dispatch queue: com.apple.main-thread Exception Type: EXC_BAD_ACCESS (SIGSEGV) Exception Codes: KERN_INVALID_ADDRESS at 0x00000365812a9488 Exception Note: EXC_CORPSE_NOTIFY VM Regions Near 0x365812a9488: VM_ALLOCATE 000000014c6c4000-000000014cf45000 [ 8708K] rw-/rwx SM=PRV --> MALLOC_NANO 0000600000000000-0000600008000000 [128.0M] rw-/rwx SM=PRV Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread 0 libsystem_kernel.dylib 0x00007fff70c5333a __pthread_kill + 10 1 libsystem_pthread.dylib 0x00007fff70d0fe60 pthread_kill + 430 2 libsystem_c.dylib 0x00007fff70b6a93e raise + 26 3 libsystem_platform.dylib 0x00007fff70d045fd _sigtramp + 29 4 ??? 000000000000000000 0 + 0 5 QtWidgets 0x00000001115fab2e QMainWindow::removeDockWidget(QDockWidget*) + 30 6 QtWidgets.abi3.so 0x0000000110ffe3df meth_QMainWindow_removeDockWidget(_object*, _object*) + 95 7 org.python.python 0x000000010147971d cfunction_call + 125 8 org.python.python 0x000000010143a5b7 _PyObject_MakeTpCall + 359 9 org.python.python 0x0000000101512e9c call_function + 876 10 org.python.python 0x00000001015102a2 _PyEval_EvalFrameDefault + 25554 11 org.python.python 0x000000010143ad28 function_code_fastcall + 104 12 org.python.python 0x0000000101512e0c call_function + 732 13 org.python.python 0x000000010151027e _PyEval_EvalFrameDefault + 25518 14 org.python.python 0x000000010143ad28 function_code_fastcall + 104 15 org.python.python 0x0000000101512e0c call_function + 732 16 org.python.python 0x000000010151027e _PyEval_EvalFrameDefault + 25518 17 org.python.python 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0x00000001165ac4a8 0x112683000 + 66229416 7 libsystem_pthread.dylib 0x00007fff70d10109 _pthread_start + 148 8 libsystem_pthread.dylib 0x00007fff70d0bb8b thread_start + 15 Thread 32: 0 libsystem_kernel.dylib 0x00007fff70c4f882 __psynch_cvwait + 10 1 libsystem_pthread.dylib 0x00007fff70d10425 _pthread_cond_wait + 698 2 libopenblas.0.dylib 0x0000000142baca9f blas_thread_server + 207 3 libsystem_pthread.dylib 0x00007fff70d10109 _pthread_start + 148 4 libsystem_pthread.dylib 0x00007fff70d0bb8b thread_start + 15 Thread 33: 0 libsystem_kernel.dylib 0x00007fff70c4f882 __psynch_cvwait + 10 1 libsystem_pthread.dylib 0x00007fff70d10425 _pthread_cond_wait + 698 2 libopenblas.0.dylib 0x0000000142baca9f blas_thread_server + 207 3 libsystem_pthread.dylib 0x00007fff70d10109 _pthread_start + 148 4 libsystem_pthread.dylib 0x00007fff70d0bb8b thread_start + 15 Thread 34: 0 libsystem_kernel.dylib 0x00007fff70c4f882 __psynch_cvwait + 10 1 libsystem_pthread.dylib 0x00007fff70d10425 _pthread_cond_wait + 698 2 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66259398 3 QtWebEngineCore 0x0000000116577d5f 0x112683000 + 66014559 4 QtWebEngineCore 0x000000011657880c 0x112683000 + 66017292 5 QtWebEngineCore 0x000000011657837d 0x112683000 + 66016125 6 QtWebEngineCore 0x00000001165ac4a8 0x112683000 + 66229416 7 libsystem_pthread.dylib 0x00007fff70d10109 _pthread_start + 148 8 libsystem_pthread.dylib 0x00007fff70d0bb8b thread_start + 15 Thread 37:: Dispatch queue: com.apple.root.user-interactive-qos 0 libsystem_kernel.dylib 0x00007fff70c4cdfa mach_msg_trap + 10 1 libsystem_kernel.dylib 0x00007fff70c4d170 mach_msg + 60 2 com.apple.QuartzCore 0x00007fff4278cbe5 CA::CA_BLOCKED_WAITING_FOR_CLIENT_FENCES(unsigned int, unsigned long) + 170 3 com.apple.QuartzCore 0x00007fff4276eada CA::Context::commit_transaction(CA::Transaction*, double) + 1906 4 com.apple.QuartzCore 0x00007fff4276d0a0 CA::Transaction::commit() + 644 5 com.apple.AppKit 0x00007fff33f76b74 NSPerformVisuallyAtomicChange + 154 6 com.apple.AppKit 0x00007fff341c55fc __42-[NSAnimation(NSInternal) _runInNewThread]_block_invoke + 80 7 libdispatch.dylib 0x00007fff70ab16c4 _dispatch_call_block_and_release + 12 8 libdispatch.dylib 0x00007fff70ab2658 _dispatch_client_callout + 8 9 libdispatch.dylib 0x00007fff70ac0aa8 _dispatch_root_queue_drain + 663 10 libdispatch.dylib 0x00007fff70ac1097 _dispatch_worker_thread2 + 92 11 libsystem_pthread.dylib 0x00007fff70d0c9f7 _pthread_wqthread + 220 12 libsystem_pthread.dylib 0x00007fff70d0bb77 start_wqthread + 15 Thread 38: 0 libsystem_pthread.dylib 0x00007fff70d0bb68 start_wqthread + 0 Thread 39: 0 libsystem_pthread.dylib 0x00007fff70d0bb68 start_wqthread + 0 Thread 40: 0 libsystem_pthread.dylib 0x00007fff70d0bb68 start_wqthread + 0 Thread 0 crashed with X86 Thread State (64-bit): rax: 0x0000000000000000 rbx: 0x00000001092d8dc0 rcx: 0x00007fc151955418 rdx: 0x0000000000000000 rdi: 0x0000000000000307 rsi: 0x000000000000000b rbp: 0x00007fc151955440 rsp: 0x00007fc151955418 r8: 0x00007fc151955f48 r9: 0x141963ef01b6515b r10: 0x00000001092d8dc0 r11: 0x0000000000000246 r12: 0x0000000000000307 r13: 0x00007fc14fd08a70 r14: 0x000000000000000b r15: 0x0000000000000016 rip: 0x00007fff70c5333a rfl: 0x0000000000000246 cr2: 0x00007fc1519548c0 Logical CPU: 0 Error Code: 0x02000148 Trap Number: 133 Binary Images: 0x1013f2000 - 0x1013f2ff3 +edu.ucsf.cgl.ChimeraX (1.4.0 - 1.4.0.0) /var/folders/*/ChimeraX-1.4.app/Contents/MacOS/ChimeraX 0x1013fb000 - 0x101663fff +org.python.python (3.9.11, [c] 2001-2021 Python Software Foundation. - 3.9.11) /var/folders/*/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/Python 0x1017c9000 - 0x1017cbfff +_heapq.cpython-39-darwin.so (0) /var/folders/*/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/lib-dynload/_heapq.cpython-39-darwin.so 0x1017d5000 - 0x1017d9ff7 +binascii.cpython-39-darwin.so (0) 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/System/Library/PrivateFrameworks/UIFoundation.framework/Versions/A/UIFoundation 0x7fff67dfb000 - 0x7fff67e01ffe com.apple.URLFormatting (119 - 119.18) /System/Library/PrivateFrameworks/URLFormatting.framework/Versions/A/URLFormatting 0x7fff689d7000 - 0x7fff689f7ffc com.apple.UserManagement (1.0 - 1) /System/Library/PrivateFrameworks/UserManagement.framework/Versions/A/UserManagement 0x7fff697a3000 - 0x7fff6988dff8 com.apple.ViewBridge (464.1 - 464.1) /System/Library/PrivateFrameworks/ViewBridge.framework/Versions/A/ViewBridge 0x7fff69a33000 - 0x7fff69a34fff com.apple.WatchdogClient.framework (1.0 - 67.120.2) /System/Library/PrivateFrameworks/WatchdogClient.framework/Versions/A/WatchdogClient 0x7fff69dc0000 - 0x7fff69dfbfff libAWDSupport.dylib (949) /System/Library/PrivateFrameworks/WirelessDiagnostics.framework/Versions/A/Libraries/libAWDSupport.dylib 0x7fff69dfc000 - 0x7fff6a0dcff7 libAWDSupportFramework.dylib (3541.1) 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libChineseTokenizer.dylib (34) /usr/lib/libChineseTokenizer.dylib 0x7fff6d590000 - 0x7fff6d618fff libCoreStorage.dylib (551) /usr/lib/libCoreStorage.dylib 0x7fff6d61b000 - 0x7fff6d61dff7 libDiagnosticMessagesClient.dylib (112) /usr/lib/libDiagnosticMessagesClient.dylib 0x7fff6d663000 - 0x7fff6d81affb libFosl_dynamic.dylib (100.4) /usr/lib/libFosl_dynamic.dylib 0x7fff6d841000 - 0x7fff6d847ff3 libIOReport.dylib (54) /usr/lib/libIOReport.dylib 0x7fff6d929000 - 0x7fff6d930fff libMatch.1.dylib (36) /usr/lib/libMatch.1.dylib 0x7fff6d95f000 - 0x7fff6d97ffff libMobileGestalt.dylib (826.120.5) /usr/lib/libMobileGestalt.dylib 0x7fff6d9ff000 - 0x7fff6dadcff7 libSMC.dylib (20) /usr/lib/libSMC.dylib 0x7fff6daf1000 - 0x7fff6daf2fff libSystem.B.dylib (1281.100.1) /usr/lib/libSystem.B.dylib 0x7fff6daf3000 - 0x7fff6db7eff7 libTelephonyUtilDynamic.dylib (5017.1) /usr/lib/libTelephonyUtilDynamic.dylib 0x7fff6db7f000 - 0x7fff6db80fff libThaiTokenizer.dylib (3) /usr/lib/libThaiTokenizer.dylib 0x7fff6db98000 - 0x7fff6dbaefff libapple_nghttp2.dylib (1.39.2) /usr/lib/libapple_nghttp2.dylib 0x7fff6dbe3000 - 0x7fff6dc55ff7 libarchive.2.dylib (72.100.1) /usr/lib/libarchive.2.dylib 0x7fff6dc56000 - 0x7fff6dceffe5 libate.dylib (3.0.1) /usr/lib/libate.dylib 0x7fff6dcf3000 - 0x7fff6dcf3ff3 libauto.dylib (187) /usr/lib/libauto.dylib 0x7fff6dcf4000 - 0x7fff6ddb8ffe libboringssl.dylib (283.120.1) /usr/lib/libboringssl.dylib 0x7fff6ddb9000 - 0x7fff6ddc9ffb libbsm.0.dylib (60.100.1) /usr/lib/libbsm.0.dylib 0x7fff6ddca000 - 0x7fff6ddd6fff libbz2.1.0.dylib (44) /usr/lib/libbz2.1.0.dylib 0x7fff6ddd7000 - 0x7fff6de29fff libc++.1.dylib (902.1) /usr/lib/libc++.1.dylib 0x7fff6de2a000 - 0x7fff6de3fffb libc++abi.dylib (902) /usr/lib/libc++abi.dylib 0x7fff6de40000 - 0x7fff6de40fff libcharset.1.dylib (59) /usr/lib/libcharset.1.dylib 0x7fff6de41000 - 0x7fff6de52fff libcmph.dylib (8) /usr/lib/libcmph.dylib 0x7fff6de53000 - 0x7fff6de6afd7 libcompression.dylib (87) /usr/lib/libcompression.dylib 0x7fff6e144000 - 0x7fff6e15aff7 libcoretls.dylib (167) /usr/lib/libcoretls.dylib 0x7fff6e15b000 - 0x7fff6e15cfff libcoretls_cfhelpers.dylib (167) /usr/lib/libcoretls_cfhelpers.dylib 0x7fff6e5ff000 - 0x7fff6e703fef libcrypto.44.dylib (47.120.1) /usr/lib/libcrypto.44.dylib 0x7fff6e706000 - 0x7fff6e711fff libcsfde.dylib (551) /usr/lib/libcsfde.dylib 0x7fff6e719000 - 0x7fff6e778ff7 libcups.2.dylib (483.6) /usr/lib/libcups.2.dylib 0x7fff6e77a000 - 0x7fff6e7dfff7 libcurl.4.dylib (118.120.2) /usr/lib/libcurl.4.dylib 0x7fff6e882000 - 0x7fff6e882fff libenergytrace.dylib (21) /usr/lib/libenergytrace.dylib 0x7fff6e883000 - 0x7fff6e89bfff libexpat.1.dylib (19.60.2) /usr/lib/libexpat.1.dylib 0x7fff6e8a9000 - 0x7fff6e8abfff libfakelink.dylib (149.1) /usr/lib/libfakelink.dylib 0x7fff6e8ac000 - 0x7fff6e8b1f57 libffi.dylib (26) /usr/lib/libffi.dylib 0x7fff6e8ba000 - 0x7fff6e8bffff libgermantok.dylib (24) /usr/lib/libgermantok.dylib 0x7fff6e8c0000 - 0x7fff6e8c9ff7 libheimdal-asn1.dylib (564.100.1) /usr/lib/libheimdal-asn1.dylib 0x7fff6e8ca000 - 0x7fff6e9bafff libiconv.2.dylib (59) /usr/lib/libiconv.2.dylib 0x7fff6e9bb000 - 0x7fff6ec12fff libicucore.A.dylib (64260.0.1) /usr/lib/libicucore.A.dylib 0x7fff6ec2c000 - 0x7fff6ec2dfff liblangid.dylib (133) /usr/lib/liblangid.dylib 0x7fff6ec2e000 - 0x7fff6ec46ff3 liblzma.5.dylib (16) /usr/lib/liblzma.5.dylib 0x7fff6ec5e000 - 0x7fff6ed05ff7 libmecab.dylib (883.11) /usr/lib/libmecab.dylib 0x7fff6ed06000 - 0x7fff6ef68ff1 libmecabra.dylib (883.11) /usr/lib/libmecabra.dylib 0x7fff6f2d5000 - 0x7fff6f304fff libncurses.5.4.dylib (57) /usr/lib/libncurses.5.4.dylib 0x7fff6f434000 - 0x7fff6f8b0ff5 libnetwork.dylib (1880.120.4) /usr/lib/libnetwork.dylib 0x7fff6f8b1000 - 0x7fff6f8c8fff libnetworkextension.dylib (1095.120.6) /usr/lib/libnetworkextension.dylib 0x7fff6f951000 - 0x7fff6f984fde libobjc.A.dylib (787.1) /usr/lib/libobjc.A.dylib 0x7fff6f985000 - 0x7fff6f986ff7 libodfde.dylib (26) /usr/lib/libodfde.dylib 0x7fff6f997000 - 0x7fff6f99bfff libpam.2.dylib (25.100.1) /usr/lib/libpam.2.dylib 0x7fff6f99e000 - 0x7fff6f9d4ff7 libpcap.A.dylib (89.120.1) /usr/lib/libpcap.A.dylib 0x7fff6fa14000 - 0x7fff6fa22ff9 libperfcheck.dylib (37.100.2) /usr/lib/libperfcheck.dylib 0x7fff6fa23000 - 0x7fff6fa26ff3 libpmenergy.dylib (214.120.1) /usr/lib/libpmenergy.dylib 0x7fff6fa27000 - 0x7fff6fa29fff libpmsample.dylib (214.120.1) /usr/lib/libpmsample.dylib 0x7fff6fa58000 - 0x7fff6fa70fff libresolv.9.dylib (67.40.1) /usr/lib/libresolv.9.dylib 0x7fff6fa72000 - 0x7fff6fab6ff7 libsandbox.1.dylib (1217.120.7) /usr/lib/libsandbox.1.dylib 0x7fff6fab7000 - 0x7fff6fac9ff7 libsasl2.2.dylib (213.120.1) /usr/lib/libsasl2.2.dylib 0x7fff6faca000 - 0x7fff6facbff7 libspindump.dylib (281.3) /usr/lib/libspindump.dylib 0x7fff6facc000 - 0x7fff6fcb6ff7 libsqlite3.dylib (308.5) /usr/lib/libsqlite3.dylib 0x7fff6fdaa000 - 0x7fff6fdd7ffb libssl.46.dylib (47.120.1) /usr/lib/libssl.46.dylib 0x7fff6fe59000 - 0x7fff6fe8aff7 libtidy.A.dylib (17.1) /usr/lib/libtidy.A.dylib 0x7fff6feac000 - 0x7fff6ff06ff8 libusrtcp.dylib (1880.120.4) /usr/lib/libusrtcp.dylib 0x7fff6ff07000 - 0x7fff6ff0affb libutil.dylib (57) /usr/lib/libutil.dylib 0x7fff6ff0b000 - 0x7fff6ff18ff7 libxar.1.dylib (425.2) /usr/lib/libxar.1.dylib 0x7fff6ff1e000 - 0x7fff70000ff7 libxml2.2.dylib (33.3) /usr/lib/libxml2.2.dylib 0x7fff70004000 - 0x7fff7002cfff libxslt.1.dylib (16.9) /usr/lib/libxslt.1.dylib 0x7fff7002d000 - 0x7fff7003fff3 libz.1.dylib (76) /usr/lib/libz.1.dylib 0x7fff708ed000 - 0x7fff708f2ff3 libcache.dylib (83) /usr/lib/system/libcache.dylib 0x7fff708f3000 - 0x7fff708fefff libcommonCrypto.dylib (60165.120.1) /usr/lib/system/libcommonCrypto.dylib 0x7fff708ff000 - 0x7fff70906fff libcompiler_rt.dylib (101.2) /usr/lib/system/libcompiler_rt.dylib 0x7fff70907000 - 0x7fff70910ff7 libcopyfile.dylib (166.40.1) /usr/lib/system/libcopyfile.dylib 0x7fff70911000 - 0x7fff709a3fe3 libcorecrypto.dylib (866.120.3) /usr/lib/system/libcorecrypto.dylib 0x7fff70ab0000 - 0x7fff70af0ff0 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0x7fff70be3000 - 0x7fff70be6ffb libsystem_configuration.dylib (1061.120.2) /usr/lib/system/libsystem_configuration.dylib 0x7fff70be7000 - 0x7fff70beafff libsystem_coreservices.dylib (114) /usr/lib/system/libsystem_coreservices.dylib 0x7fff70beb000 - 0x7fff70bf3fff libsystem_darwin.dylib (1353.100.2) /usr/lib/system/libsystem_darwin.dylib 0x7fff70bf4000 - 0x7fff70bfbfff libsystem_dnssd.dylib (1096.100.3) /usr/lib/system/libsystem_dnssd.dylib 0x7fff70bfc000 - 0x7fff70bfdffb libsystem_featureflags.dylib (17) /usr/lib/system/libsystem_featureflags.dylib 0x7fff70bfe000 - 0x7fff70c4bff7 libsystem_info.dylib (538) /usr/lib/system/libsystem_info.dylib 0x7fff70c4c000 - 0x7fff70c78ff7 libsystem_kernel.dylib (6153.121.2) /usr/lib/system/libsystem_kernel.dylib 0x7fff70c79000 - 0x7fff70cc0fff libsystem_m.dylib (3178) /usr/lib/system/libsystem_m.dylib 0x7fff70cc1000 - 0x7fff70ce8fff libsystem_malloc.dylib (283.100.6) /usr/lib/system/libsystem_malloc.dylib 0x7fff70ce9000 - 0x7fff70cf6ffb libsystem_networkextension.dylib (1095.120.6) /usr/lib/system/libsystem_networkextension.dylib 0x7fff70cf7000 - 0x7fff70d00ff7 libsystem_notify.dylib (241.100.2) /usr/lib/system/libsystem_notify.dylib 0x7fff70d01000 - 0x7fff70d09fef libsystem_platform.dylib (220.100.1) /usr/lib/system/libsystem_platform.dylib 0x7fff70d0a000 - 0x7fff70d14fff libsystem_pthread.dylib (416.100.3) /usr/lib/system/libsystem_pthread.dylib 0x7fff70d15000 - 0x7fff70d19ff3 libsystem_sandbox.dylib (1217.120.7) /usr/lib/system/libsystem_sandbox.dylib 0x7fff70d1a000 - 0x7fff70d1cfff libsystem_secinit.dylib (62.100.2) /usr/lib/system/libsystem_secinit.dylib 0x7fff70d1d000 - 0x7fff70d24ffb libsystem_symptoms.dylib (1238.120.1) /usr/lib/system/libsystem_symptoms.dylib 0x7fff70d25000 - 0x7fff70d3bff2 libsystem_trace.dylib (1147.120) /usr/lib/system/libsystem_trace.dylib 0x7fff70d3d000 - 0x7fff70d42ff7 libunwind.dylib (35.4) /usr/lib/system/libunwind.dylib 0x7fff70d43000 - 0x7fff70d78ffe libxpc.dylib (1738.120.8) /usr/lib/system/libxpc.dylib External Modification Summary: Calls made by other processes targeting this process: task_for_pid: 12 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: 1017620 thread_create: 0 thread_set_state: 0 VM Region Summary: ReadOnly portion of Libraries: Total=1.1G resident=0K(0%) swapped_out_or_unallocated=1.1G(100%) Writable regions: Total=1.4G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.4G(100%) VIRTUAL REGION REGION TYPE SIZE COUNT (non-coalesced) =========== ======= ======= Accelerate framework 256K 2 Activity Tracing 256K 1 CG backing stores 6756K 9 CG image 732K 26 CoreAnimation 264K 24 CoreGraphics 8K 1 CoreImage 32K 4 CoreUI image data 3572K 30 Foundation 32K 2 Kernel Alloc Once 8K 1 MALLOC 566.1M 726 MALLOC guard page 32K 8 MALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated) MALLOC_NANO (reserved) 256.0M 1 reserved VM address space (unallocated) Mach message 16K 2 Memory Tag 242 12K 1 OpenGL GLSL 384K 4 STACK GUARD 160K 40 Stack 333.8M 41 Stack Guard 56.0M 1 VM_ALLOCATE 210.6M 202 VM_ALLOCATE (reserved) 96.0M 1 reserved VM address space (unallocated) __DATA 65.8M 654 __DATA_CONST 124K 7 __FONT_DATA 4K 1 __GLSLBUILTINS 5176K 1 __LINKEDIT 427.4M 244 __OBJC_RO 32.2M 1 __OBJC_RW 1888K 1 __TEXT 694.4M 623 __UNICODE 564K 1 mapped file 86.5M 49 shared memory 2868K 28 =========== ======= ======= TOTAL 2.8G 2738 TOTAL, minus reserved VM space 2.4G 2738 System Profile: Network Service: Wi-Fi, AirPort, en0 bridge_os_version: Bridge OS 4.5 (17P5300) Boot Volume File System Type: apfs bridge_model: iBridge2,15 Memory Module: BANK 0/ChannelA-DIMM0, 4 GB, LPDDR4, 3733 MHz, SK Hynix, H9HCNNNCRMALPR-NEE Memory Module: BANK 2/ChannelB-DIMM0, 4 GB, LPDDR4, 3733 MHz, SK Hynix, H9HCNNNCRMALPR-NEE USB Device: USB 3.1 Bus USB Device: USB 3.1 Bus USB Device: Apple T2 Bus USB Device: Touch Bar Backlight USB Device: Apple Internal Keyboard / Trackpad USB Device: Headset USB Device: Ambient Light Sensor USB Device: FaceTime HD Camera (Built-in) USB Device: Apple T2 Controller Thunderbolt Bus: MacBook Air, Apple Inc., 80.0 Model: MacBookAir9,1, BootROM 1037.120.87.0.0 (iBridge: 17.16.15300.0.0,0), 4 processors, Quad-Core Intel Core i5, 1.1 GHz, 8 GB, SMC Graphics: kHW_IntelIrisPlusGraphicsItem, Intel Iris Plus Graphics, spdisplays_builtin AirPort: spairport_wireless_card_type_airport_extreme, wl0: Feb 28 2020 15:26:30 version 16.20.192.27.3.6.77 FWID 01-f80dbb9b Bluetooth: Version 7.0.5f6, 3 services, 27 devices, 1 incoming serial ports Log: UCSF ChimeraX version: 1.4 (2022-06-03) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/guaguaguagua/Downloads/pdb7rw6.ent pdb7rw6.ent title: BORF2-APOBEC3BCTD complex [more info...] Chain information for pdb7rw6.ent #1 --- Chain | Description | UniProt A C | maltose/maltodextrin-binding periplasmic protein, ribonucleoside- diphosphate reductase large subunit | RIR1_EBVB9 B D | DNA DC->du-editing enzyme apobec-3B | ABC3B_HUMAN Non-standard residues in pdb7rw6.ent #1 --- ZN — zinc ion OpenGL version: 4.1 INTEL-14.6.18 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics OpenGL Engine OpenGL vendor: Intel Inc. Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.3.0, Qt 6.3.0 Qt runtime version: 6.3.0 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Air Model Identifier: MacBookAir9,1 Processor Name: Quad-Core Intel Core i5 Processor Speed: 1.1 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 512 KB L3 Cache: 6 MB Hyper-Threading Technology: Enabled Memory: 8 GB Boot ROM Version: 1037.120.87.0.0 (iBridge: 17.16.15300.0.0,0) Software: System Software Overview: System Version: macOS 10.15.5 (19F101) Kernel Version: Darwin 19.5.0 Time since boot: 11 days 20:43 Graphics/Displays: Intel Iris Plus Graphics: Chipset Model: Intel Iris Plus Graphics Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x8a51 Revision ID: 0x0007 Metal: Supported, feature set macOS GPUFamily2 v1 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Framebuffer Depth: 30-Bit Color (ARGB2101010) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: No Connection Type: Internal YHC TYPE-C: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: YHC TYPE-C Mirror: Off Online: Yes Rotation: Supported Automatically Adjust Brightness: No Connection Type: Thunderbolt/DisplayPort Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.3 Babel: 2.10.1 backcall: 0.2.0 blockdiag: 3.0.0 certifi: 2021.10.8 cftime: 1.6.0 charset-normalizer: 2.0.12 ChimeraX-AddCharge: 1.2.3 ChimeraX-AddH: 2.1.11 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.4.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.39.1 ChimeraX-AtomicLibrary: 7.0 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.1 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.1 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.7 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.2 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.1 ChimeraX-CommandLine: 1.2.3 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.4 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.1 ChimeraX-DistMonitor: 1.1.5 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0 ChimeraX-FunctionKey: 1.0 ChimeraX-Geometry: 1.2 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1 ChimeraX-Hbonds: 2.1.2 ChimeraX-Help: 1.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0 ChimeraX-Label: 1.1.1 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.1 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 2.0.6 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.7 ChimeraX-MMTF: 2.1 ChimeraX-Modeller: 1.5.5 ChimeraX-ModelPanel: 1.3.2 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.2 ChimeraX-OpenCommand: 1.9 ChimeraX-PDB: 2.6.6 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.6 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.1 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.8 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.0.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.1 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.18.3 ChimeraX-uniprot: 2.2 ChimeraX-UnitCell: 1.0 ChimeraX-ViewDockX: 1.1.2 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0 ChimeraX-WebServices: 1.1.0 ChimeraX-Zone: 1.0 colorama: 0.4.4 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.26 debugpy: 1.6.0 decorator: 5.1.1 docutils: 0.17.1 entrypoints: 0.4 filelock: 3.4.2 fonttools: 4.33.3 funcparserlib: 1.0.0 grako: 3.16.5 h5py: 3.7.0 html2text: 2020.1.16 idna: 3.3 ihm: 0.27 imagecodecs: 2021.11.20 imagesize: 1.3.0 ipykernel: 6.6.1 ipython: 7.31.1 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.0.3 jupyter-client: 7.1.0 jupyter-core: 4.10.0 kiwisolver: 1.4.2 line-profiler: 3.4.0 lxml: 4.7.1 lz4: 3.1.10 MarkupSafe: 2.1.1 matplotlib: 3.5.1 matplotlib-inline: 0.1.3 msgpack: 1.0.3 nest-asyncio: 1.5.5 netCDF4: 1.5.8 networkx: 2.6.3 numexpr: 2.8.1 numpy: 1.22.1 openvr: 1.16.802 packaging: 21.0 ParmEd: 3.4.3 parso: 0.8.3 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.0.1 pip: 21.3.1 pkginfo: 1.8.2 prompt-toolkit: 3.0.29 psutil: 5.9.0 ptyprocess: 0.7.0 pycollada: 0.7.2 pydicom: 2.2.2 Pygments: 2.11.2 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 PyQt6-commercial: 6.3.0 PyQt6-Qt6: 6.3.0 PyQt6-sip: 13.3.1 PyQt6-WebEngine-commercial: 6.3.0 PyQt6-WebEngine-Qt6: 6.3.0 python-dateutil: 2.8.2 pytz: 2022.1 pyzmq: 23.1.0 qtconsole: 5.3.0 QtPy: 2.1.0 RandomWords: 0.3.0 requests: 2.27.1 scipy: 1.7.3 setuptools: 59.8.0 sfftk-rw: 0.7.2 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 4.3.2 sphinx-autodoc-typehints: 1.15.2 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 suds-community: 1.0.0 tables: 3.7.0 tifffile: 2021.11.2 tinyarray: 1.2.4 tornado: 6.1 traitlets: 5.1.1 urllib3: 1.26.9 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.37.1 wheel-filename: 1.3.0 }}} " defect closed normal Window Toolkit can't reproduce Tom Goddard all ChimeraX