id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 8802 Crash estimating association parameters drorn@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC) Description Opened a .fasta file Fatal Python error: Segmentation fault Current thread 0x000000020030a600 (most recent call first): File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molobject.py"", line 1233 in estimate_assoc_params File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/seqalign/alignment.py"", line 256 in associate File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/seqalign/alignment.py"", line 109 in __init__ File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/seqalign/manager.py"", line 243 in new_alignment File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/seqalign/parse.py"", line 56 in open_file File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/seqalign/__init__.py"", line 61 in open File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py"", line 428 in remember_data_format File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py"", line 457 in collated_open File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py"", line 193 in provider_open File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py"", line 2897 in run File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/cmd.py"", line 118 in cmd_open File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py"", line 2897 in run File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/run.py"", line 38 in run File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/open_command/dialog.py"", line 162 in _qt_safe File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py"", line 283 in event_loop File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 884 in init File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 1035 in File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 87 in _run_code File ""/Applications/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 197 in _run_module_as_main {""app_name"":""ChimeraX"",""timestamp"":""2023-04-07 14:56:21.00 +0300"",""app_version"":""1.5.0"",""slice_uuid"":""5df621ee-554e-36a8-b448-93b2334e5480"",""build_version"":""1.5.0.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":0,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 12.5.1 (21G83)"",""incident_id"":""4B83C832-BBCF-4704-9C00-F6CAC7F1D808"",""name"":""ChimeraX""} { ""uptime"" : 570000, ""procLaunch"" : ""2023-04-07 14:52:22.1463 +0300"", ""procRole"" : ""Foreground"", ""version"" : 2, ""userID"" : 501, ""deployVersion"" : 210, ""modelCode"" : ""MacBookPro18,3"", ""procStartAbsTime"" : 13722309270288, ""coalitionID"" : 37293, ""osVersion"" : { ""train"" : ""macOS 12.5.1"", ""build"" : ""21G83"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2023-04-07 14:56:20.9182 +0300"", ""incident"" : ""4B83C832-BBCF-4704-9C00-F6CAC7F1D808"", ""bug_type"" : ""309"", ""pid"" : 89746, ""procExitAbsTime"" : 13728039037141, ""translated"" : true, ""cpuType"" : ""X86-64"", ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.5.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.5.0"",""CFBundleVersion"":""1.5.0.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""09419C6D-0952-5EF2-B823-479DA07C8E29"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""85721B32-C180-04B2-6E13-1A5C73CFEB2B"", ""wakeTime"" : 11003, ""sleepWakeUUID"" : ""FAE99E09-45E9-440B-9B15-B929A2A14F2D"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x69766f72706f is not in any region. Bytes after previous region: 10403743690864 Bytes before following region: 24304758394769\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n MALLOC_NANO (reserved) 600018000000-600020000000 [128.0M] rw-\/rwx SM=NUL ...(unallocated)\n---> GAP OF 0x1f9133f00000 BYTES\n MALLOC_LARGE 7f9153f00000-7f9153f0c000 [ 48K] rw-\/rwx SM=PRV "", ""isCorpse"" : 1, ""exception"" : {""codes"":""0x0000000000000001, 0x656469766f72706f"",""rawCodes"":[1,7306080452898615407],""type"":""EXC_BAD_ACCESS"",""signal"":""SIGSEGV"",""subtype"":""KERN_INVALID_ADDRESS at 0x656469766f72706f -> 0x000069766f72706f (possible pointer authentication failure)""}, ""ktriageinfo"" : ""VM - pmap_enter failed with resource shortage\n"", ""vmregioninfo"" : ""0x69766f72706f is not in any region. Bytes after previous region: 10403743690864 Bytes before following region: 24304758394769\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n MALLOC_NANO (reserved) 600018000000-600020000000 [128.0M] rw-\/rwx SM=NUL ...(unallocated)\n---> GAP OF 0x1f9133f00000 BYTES\n MALLOC_LARGE 7f9153f00000-7f9153f0c000 [ 48K] rw-\/rwx SM=PRV "", ""extMods"" : {""caller"":{""thread_create"":0,""thread_set_state"":0,""task_for_pid"":0},""system"":{""thread_create"":0,""thread_set_state"":0,""task_for_pid"":0},""targeted"":{""thread_create"":0,""thread_set_state"":0,""task_for_pid"":0},""warnings"":0}, ""faultingThread"" : 0, ""threads"" : [{""triggered"":true,""id"":8313463,""threadState"":{""flavor"":""x86_THREAD_STATE"",""rbp"":{""value"":7678343223322266562},""r12"":{""value"":259},""rosetta"":{""tmp2"":{""value"":140703220969476},""tmp1"":{""value"":140705641916692},""tmp0"":{""value"":18446744073709551615}},""rbx"":{""value"":8593122816,""symbolLocation"":0,""symbol"":""_main_thread""},""r8"":{""value"":11},""r15"":{""value"":22},""r10"":{""value"":8593122816,""symbolLocation"":0,""symbol"":""_main_thread""},""rdx"":{""value"":0},""rdi"":{""value"":7678343223322266562},""r9"":{""value"":7678343223322266562},""r13"":{""value"":12957036800},""rflags"":{""value"":643},""rax"":{""value"":0},""rsp"":{""value"":5062602888},""r11"":{""value"":5061625120,""symbolLocation"":0,""symbol"":""sseq_estimate_assoc_params""},""rcx"":{""value"":0},""r14"":{""value"":11},""rsi"":{""value"":5062602888}},""name"":""CrBrowserMain"",""queue"":""com.apple.main-thread"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":32782,""symbol"":""__pthread_kill"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":25087,""symbol"":""pthread_kill"",""symbolLocation"":263,""imageIndex"":2},{""imageOffset"":279256,""symbol"":""raise"",""symbolLocation"":26,""imageIndex"":3},{""imageOffset"":15869,""symbol"":""_sigtramp"",""symbolLocation"":29,""imageIndex"":4},{""imageOffset"":0,""imageIndex"":0},{""imageOffset"":10370,""symbol"":""ffi_call_unix64"",""symbolLocation"":82,""imageIndex"":5},{""imageOffset"":12957036816,""imageIndex"":0}]},{""id"":8313475,""name"":""com.apple.rosetta.exceptionserver"",""frames"":[{""imageOffset"":18756,""imageIndex"":6},{""imageOffset"":74720,""imageIndex"":6},{""imageOffset"":81496,""imageIndex"":6}]},{""id"":8313488,""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":3445311,""symbol"":""blas_thread_server"",""symbolLocation"":207,""imageIndex"":7},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313489,""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":3445311,""symbol"":""blas_thread_server"",""symbolLocation"":207,""imageIndex"":7},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313490,""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":3445311,""symbol"":""blas_thread_server"",""symbolLocation"":207,""imageIndex"":7},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313491,""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":3445311,""symbol"":""blas_thread_server"",""symbolLocation"":207,""imageIndex"":7},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313492,""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":3445311,""symbol"":""blas_thread_server"",""symbolLocation"":207,""imageIndex"":7},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313493,""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":3445311,""symbol"":""blas_thread_server"",""symbolLocation"":207,""imageIndex"":7},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313494,""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":3445311,""symbol"":""blas_thread_server"",""symbolLocation"":207,""imageIndex"":7},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313496,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8313516,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8313598,""name"":""ThreadPoolServiceThread"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":43210,""symbol"":""kevent64"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":66456106,""imageIndex"":8},{""imageOffset"":66455847,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":65958573,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313601,""name"":""Chrome_IOThread"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":43210,""symbol"":""kevent64"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":66456106,""imageIndex"":8},{""imageOffset"":66455847,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":48386978,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313602,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66251759,""imageIndex"":8},{""imageOffset"":65421769,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313607,""name"":""CompositorTileWorker1"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":17386,""symbol"":""__psynch_cvwait"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":27247,""symbol"":""_pthread_cond_wait"",""symbolLocation"":1249,""imageIndex"":2},{""imageOffset"":66219291,""imageIndex"":8},{""imageOffset"":100616493,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313608,""name"":""Chrome_InProcGpuThread"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66251759,""imageIndex"":8},{""imageOffset"":65421769,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313609,""name"":""Chrome_ChildIOThread"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":43210,""symbol"":""kevent64"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":66456106,""imageIndex"":8},{""imageOffset"":66455847,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313610,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66251759,""imageIndex"":8},{""imageOffset"":65421769,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313611,""name"":""VizCompositorThread"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":65421672,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313620,""name"":""NetworkService"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":43210,""symbol"":""kevent64"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":66456106,""imageIndex"":8},{""imageOffset"":66455847,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313621,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66251759,""imageIndex"":8},{""imageOffset"":65421769,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313622,""name"":""ThreadPoolSingleThreadForegroundBlocking0"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66009023,""imageIndex"":8},{""imageOffset"":66011756,""imageIndex"":8},{""imageOffset"":66010829,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313651,""name"":""NetworkConfigWatcher"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66251759,""imageIndex"":8},{""imageOffset"":65421769,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313690,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8313694,""name"":""ThreadPoolBackgroundWorker"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66009023,""imageIndex"":8},{""imageOffset"":66011756,""imageIndex"":8},{""imageOffset"":66010589,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313697,""name"":""com.apple.NSEventThread"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":521568,""symbol"":""__CFRunLoopServiceMachPort"",""symbolLocation"":319,""imageIndex"":9},{""imageOffset"":515056,""symbol"":""__CFRunLoopRun"",""symbolLocation"":1276,""imageIndex"":9},{""imageOffset"":512052,""symbol"":""CFRunLoopRunSpecific"",""symbolLocation"":562,""imageIndex"":9},{""imageOffset"":1755598,""symbol"":""_NSEventThread"",""symbolLocation"":132,""imageIndex"":10},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313701,""name"":""MemoryInfra"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66251759,""imageIndex"":8},{""imageOffset"":65421769,""imageIndex"":8},{""imageOffset"":65919580,""imageIndex"":8},{""imageOffset"":65624472,""imageIndex"":8},{""imageOffset"":66059960,""imageIndex"":8},{""imageOffset"":66060362,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313702,""name"":""ThreadPoolSingleThreadSharedBackgroundBlocking1"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66009023,""imageIndex"":8},{""imageOffset"":66011034,""imageIndex"":8},{""imageOffset"":66010637,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8313726,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8314185,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8315274,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8315474,""name"":""ThreadPoolForegroundWorker"",""frames"":[{""imageOffset"":140705641916736,""imageIndex"":0},{""imageOffset"":6522,""symbol"":""mach_msg_trap"",""symbolLocation"":10,""imageIndex"":1},{""imageOffset"":7400,""symbol"":""mach_msg"",""symbolLocation"":56,""imageIndex"":1},{""imageOffset"":66252326,""imageIndex"":8},{""imageOffset"":66009023,""imageIndex"":8},{""imageOffset"":66011756,""imageIndex"":8},{""imageOffset"":66010733,""imageIndex"":8},{""imageOffset"":66222344,""imageIndex"":8},{""imageOffset"":25825,""symbol"":""_pthread_start"",""symbolLocation"":125,""imageIndex"":2},{""imageOffset"":8043,""symbol"":""thread_start"",""symbolLocation"":15,""imageIndex"":2}]},{""id"":8315488,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8315560,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8315682,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8315716,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8316242,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]},{""id"":8316243,""frames"":[{""imageOffset"":141332,""imageIndex"":6}]}], ""usedImages"" : [ { ""size"" : 0, ""source"" : ""A"", ""base"" : 0, ""uuid"" : ""00000000-0000-0000-0000-000000000000"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 140703220936704, ""size"" : 229376, ""uuid"" : ""792406fe-2224-3c14-ba9f-f076fd7839d2"", ""path"" : ""\/usr\/lib\/system\/libsystem_kernel.dylib"", ""name"" : ""libsystem_kernel.dylib"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 140703221166080, ""size"" : 49152, ""uuid"" : ""f32b6d06-b156-3da0-b086-a31cf011362b"", ""path"" : ""\/usr\/lib\/system\/libsystem_pthread.dylib"", ""name"" : ""libsystem_pthread.dylib"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 140703219920896, ""size"" : 561152, ""uuid"" : ""e8499aa8-6800-372f-bd48-82846d88c6cb"", ""path"" : ""\/usr\/lib\/system\/libsystem_c.dylib"", ""name"" : ""libsystem_c.dylib"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 140703221264384, ""size"" : 40960, ""uuid"" : ""bd2bd848-f9c9-35ff-9795-32d31977523d"", ""path"" : ""\/usr\/lib\/system\/libsystem_platform.dylib"", ""name"" : ""libsystem_platform.dylib"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 140703466135552, ""size"" : 24576, ""uuid"" : ""7e70ed8b-9977-38c4-ab38-644501129069"", ""path"" : ""\/usr\/lib\/libffi.dylib"", ""name"" : ""libffi.dylib"" }, { ""source"" : ""P"", ""arch"" : ""arm64"", ""base"" : 140703126667264, ""size"" : 196608, ""uuid"" : ""ef33add1-6b70-3cc9-8bbc-c8544b609d2b"", ""path"" : ""\/usr\/libexec\/rosetta\/runtime"", ""name"" : ""runtime"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 4536389632, ""size"" : 64028672, ""uuid"" : ""24c9d5c5-4854-3af4-9550-cb0204044dfa"", ""path"" : ""\/Applications\/ChimeraX-1.5.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/numpy\/.dylibs\/libopenblas64_.0.dylib"", ""name"" : ""libopenblas64_.0.dylib"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 5161779200, ""size"" : 165052416, ""uuid"" : ""4aa1de3e-464c-340c-ab61-bcd39bfc7658"", ""path"" : ""\/Applications\/ChimeraX-1.5.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/PyQt6\/Qt6\/lib\/QtWebEngineCore.framework\/Versions\/A\/QtWebEngineCore"", ""name"" : ""QtWebEngineCore"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 140703221481472, ""CFBundleShortVersionString"" : ""6.9"", ""CFBundleIdentifier"" : ""com.apple.CoreFoundation"", ""size"" : 5246976, ""uuid"" : ""32d2d187-4e52-376e-bc07-245a48c37e2b"", ""path"" : ""\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation"", ""name"" : ""CoreFoundation"", ""CFBundleVersion"" : ""1866"" }, { ""source"" : ""P"", ""arch"" : ""x86_64"", ""base"" : 140703265189888, ""CFBundleShortVersionString"" : ""6.9"", ""CFBundleIdentifier"" : ""com.apple.AppKit"", ""size"" : 15269888, ""uuid"" : ""bcb46e9b-acd5-3b26-878f-a3988bc5df7e"", ""path"" : ""\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit"", ""name"" : ""AppKit"", ""CFBundleVersion"" : ""2113.60.148"" } ], ""sharedCache"" : { ""base"" : 140703217909760, ""size"" : 19331678208, ""uuid"" : ""f3387257-f96f-3907-b94c-1d7f0ebef98b"" }, ""vmSummary"" : ""ReadOnly portion of Libraries: Total=1.5G resident=0K(0%) swapped_out_or_unallocated=1.5G(100%)\nWritable regions: Total=2.2G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=2.2G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 640K 5 \nActivity Tracing 256K 1 \nCG backing stores 3520K 4 \nCG image 780K 43 \nColorSync 228K 27 \nCoreAnimation 1828K 25 \nCoreGraphics 12K 2 \nCoreUI image data 4312K 30 \nFoundation 16K 1 \nKernel Alloc Once 8K 1 \nMALLOC 808.8M 119 \nMALLOC guard page 192K 8 \nMALLOC_MEDIUM (reserved) 728.0M 8 reserved VM address space (unallocated)\nMALLOC_NANO (reserved) 128.0M 1 reserved VM address space (unallocated)\nMach message 16K 4 \nOpenGL GLSL 384K 4 \nRosetta Arena 4096K 2 \nRosetta Generic 1472K 365 \nRosetta IndirectBranch 2048K 1 \nRosetta JIT 128.0M 1 \nRosetta Return Stack 720K 72 \nRosetta Thread Context 720K 72 \nSTACK GUARD 48K 12 \nStack 146.2M 37 \nStack Guard 56.1M 25 \nVM_ALLOCATE 121.7M 325 \nVM_ALLOCATE (reserved) 160.1M 12 reserved VM address space (unallocated)\n__CTF 756 1 \n__DATA 44.6M 674 \n__DATA_CONST 31.0M 342 \n__DATA_DIRTY 1644K 214 \n__FONT_DATA 4K 1 \n__GLSLBUILTINS 5176K 1 \n__LINKEDIT 735.1M 150 \n__OBJC_RO 82.8M 1 \n__OBJC_RW 3200K 2 \n__TEXT 798.7M 672 \n__UNICODE 592K 1 \ndyld private memory 1184K 3 \nmapped file 5.6G 1171 \nshared memory 3004K 21 \nunshared pmap 12.8M 9 \n=========== ======= ======= \nTOTAL 9.6G 4470 \nTOTAL, minus reserved VM space 8.6G 4470 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""6112dda2fc54bc3389840642"", ""factorPackIds"" : { ""SIRI_DICTATION_ASSETS"" : ""631730a28520965d1cba0681"" }, ""deploymentId"" : 240000145 }, { ""rolloutId"" : ""5fb4245a1bbfe8005e33a1e1"", ""factorPackIds"" : { }, ""deploymentId"" : 240000021 } ], ""experiments"" : [ { ""treatmentId"" : ""c28e4ee6-1b08-4f90-8e05-2809e78310a3"", ""experimentId"" : ""6317d2003d24842ff850182a"", ""deploymentId"" : 400000013 } ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/drornoy/Documents/Protein Designs/MtrA-PufC fusion combined > model.cxs"" opened ChimeraX session > open ""/Users/drornoy/Documents/Protein Designs/MtrA-PufC_raw.pdb"" Chain information for MtrA-PufC_raw.pdb #2 --- Chain | Description A | No description available > hide #!5 models > hide #!1 models > show #!1 models > ui tool show ""Show Sequence Viewer"" > sequence chain #2/A Alignment identifier is 2/A > ui tool show ""Show Sequence Viewer"" > sequence chain #2/A Alignment identifier is 2/A > open ""/Users/drornoy/Documents/Protein Designs/MtrA-PufC.fasta"" ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 76.3 OpenGL renderer: Apple M1 Pro OpenGL vendor: Apple Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro18,3 Processor Name: Unknown Processor Speed: 2.4 GHz Number of Processors: 1 Total Number of Cores: 8 L2 Cache: 16 MB Memory: 16 GB Software: System Software Overview: System Version: macOS 12.5.1 (21G83) Kernel Version: Darwin 21.6.0 Time since boot: 25 days 5:17 Graphics/Displays: Apple M1 Pro: Chipset Model: Apple M1 Pro Type: GPU Bus: Built-In Total Number of Cores: 14 Vendor: Apple (0x106b) Metal Family: Supported, Metal GPUFamily Apple 7 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.1.0 Babel: 2.11.0 backcall: 0.2.0 blockdiag: 3.0.0 build: 0.8.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 2.1.1 ChimeraX-AddCharge: 1.4 ChimeraX-AddH: 2.2.1 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.6 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.41.5 ChimeraX-AtomicLibrary: 8.0.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.7.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.1 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.2 ChimeraX-CommandLine: 1.2.4 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.5 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.1 ChimeraX-DistMonitor: 1.3 ChimeraX-DockPrep: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.2 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 ChimeraX-Map: 1.1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.1 ChimeraX-MatchMaker: 2.0.9 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.8 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.6 ChimeraX-ModelPanel: 1.3.6 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.1 ChimeraX-MouseModes: 1.1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.9.1 ChimeraX-PDB: 2.6.8 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 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: 2.7.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.1.3 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.24.3 ChimeraX-uniprot: 2.2.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.1.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.1 ChimeraX-WebServices: 1.1.0 ChimeraX-Zone: 1.0.1 colorama: 0.4.5 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.32 debugpy: 1.6.4 decorator: 5.1.1 docutils: 0.19 entrypoints: 0.4 executing: 1.2.0 filelock: 3.7.1 fonttools: 4.38.0 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.7.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.33 imagecodecs: 2022.7.31 imagesize: 1.4.1 importlib-metadata: 5.1.0 ipykernel: 6.15.3 ipython: 8.4.0 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.1.2 jupyter-client: 7.3.4 jupyter-core: 5.1.0 kiwisolver: 1.4.4 line-profiler: 3.5.1 lxml: 4.9.1 lz4: 4.0.2 MarkupSafe: 2.1.1 matplotlib: 3.5.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.0 networkx: 2.8.5 numexpr: 2.8.4 numpy: 1.23.1 openvr: 1.23.701 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.2.0 pip: 22.2.2 pkginfo: 1.8.3 platformdirs: 2.5.4 prompt-toolkit: 3.0.33 psutil: 5.9.1 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.12.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2022.6 pyzmq: 24.0.1 qtconsole: 5.3.1 QtPy: 2.3.0 RandomWords: 0.4.0 requests: 2.28.1 scipy: 1.9.0 setuptools: 65.1.1 setuptools-scm: 7.0.5 sfftk-rw: 0.7.2 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 5.1.1 sphinx-autodoc-typehints: 1.19.1 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 stack-data: 0.6.2 tables: 3.7.0 tifffile: 2022.7.31 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.2 traitlets: 5.3.0 typing-extensions: 4.4.0 urllib3: 1.26.13 wcwidth: 0.2.5 webcolors: 1.12 wheel: 0.37.1 wheel-filename: 1.4.1 zipp: 3.11.0 }}} " defect feedback normal Sequence all ChimeraX