![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 3 years ago
Last modified 3 years ago
#7294 feedback defect
Pseudobond reader not bulletproof to loop pseudobonds
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Input/Output | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.16-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.
Trying to save after opening pb file
Fatal Python error: Segmentation fault
Thread 0x00000003259c1000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 576 in _handle_results
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x00000003249be000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 528 in _handle_tasks
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x00000003239bb000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/selectors.py", line 416 in select
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/connection.py", line 936 in wait
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 499 in _wait_for_updates
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 519 in _handle_workers
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x00000003229b8000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x00000003219b5000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x00000003209b2000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000031f9af000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000031e9ac000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000031d9a9000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000031c9a6000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000031b9a3000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000031a9a0000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000031999d000 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Current thread 0x000000020517c600 (most recent call first):
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 499 in _delete_group
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/atomic/pbgroup.py", line 41 in delete
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/graphics/drawing.py", line 1189 in __del__
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 318 in event_loop
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 870 in init
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1021 in
File "/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/Applications/ChimeraX-1.4.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":"2022-07-18 17:22:16.00 +0200","app_version":"1.4.0","slice_uuid":"9596eff5-d2be-396c-9c4e-6177235c3dae","build_version":"1.4.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 12.2.1 (21D62)","incident_id":"CAA985F2-84D5-4597-B0AF-AFE76F5AD3D5","name":"ChimeraX"}
{
"uptime" : 840000,
"procLaunch" : "2022-07-11 21:53:38.3012 +0200",
"procRole" : "Foreground",
"version" : 2,
"userID" : 502,
"deployVersion" : 210,
"modelCode" : "MacBookPro18,4",
"procStartAbsTime" : 14083132641527,
"coalitionID" : 38419,
"osVersion" : {
"train" : "macOS 12.2.1",
"build" : "21D62",
"releaseType" : "User"
},
"captureTime" : "2022-07-18 17:22:04.6120 +0200",
"incident" : "CAA985F2-84D5-4597-B0AF-AFE76F5AD3D5",
"bug_type" : "309",
"pid" : 1810,
"procExitAbsTime" : 20254980544369,
"translated" : true,
"cpuType" : "X86-64",
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.4.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.4.0","CFBundleVersion":"1.4.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"84BBF05B-B828-5F12-85DC-AC877EEADB38","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "39FD42C9-AED2-B74F-E345-248A982B14F1",
"wakeTime" : 5602,
"sleepWakeUUID" : "7C15864A-CA61-43D5-9E8C-C863F7AE6C8C",
"sip" : "enabled",
"vmRegionInfo" : "0x3ce3058b6018 is not in any region. Bytes after previous region: 66464711925785 Bytes before following region: 38607368003560\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL ...(unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600008000000 [128.0M] rw-\/rwx SM=PRV ",
"isCorpse" : 1,
"exception" : {"codes":"0x0000000000000001, 0x00003ce3058b6018","rawCodes":[1,66945748262936],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00003ce3058b6018"},
"vmregioninfo" : "0x3ce3058b6018 is not in any region. Bytes after previous region: 66464711925785 Bytes before following region: 38607368003560\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL ...(unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600008000000 [128.0M] 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":5773740,"threadState":{"flavor":"x86_THREAD_STATE","rbp":{"value":16395344409736885449},"r12":{"value":259},"rosetta":{"tmp2":{"value":140703237112072},"tmp1":{"value":140705659087124},"tmp0":{"value":18446744073709551615}},"rbx":{"value":8675378688,"symbolLocation":0,"symbol":"_main_thread"},"r8":{"value":11},"r15":{"value":22},"r10":{"value":8675378688,"symbolLocation":0,"symbol":"_main_thread"},"rdx":{"value":0},"rdi":{"value":16395344409736885449},"r9":{"value":16395344409736885449},"r13":{"value":424},"rflags":{"value":643},"rax":{"value":0},"rsp":{"value":5173350536},"r11":{"value":310016},"rcx":{"value":0},"r14":{"value":11},"rsi":{"value":5173350536}},"name":"CrBrowserMain","queue":"com.apple.main-thread","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":28946,"symbol":"__pthread_kill","symbolLocation":10,"imageIndex":1},{"imageOffset":278980,"symbol":"raise","symbolLocation":26,"imageIndex":2},{"imageOffset":15917,"symbol":"_sigtramp","symbolLocation":29,"imageIndex":3}]},{"id":5773785,"name":"com.apple.rosetta.exceptionserver","frames":[{"imageOffset":18660,"imageIndex":4},{"imageOffset":71976,"imageIndex":4},{"imageOffset":77988,"imageIndex":4}]},{"id":5773978,"name":"ThreadPoolServiceThread","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":39366,"symbol":"kevent64","symbolLocation":10,"imageIndex":1},{"imageOffset":66462919,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":65964109,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5773981,"name":"Chrome_IOThread","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":39366,"symbol":"kevent64","symbolLocation":10,"imageIndex":1},{"imageOffset":66462919,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":48397874,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5773982,"name":"NetworkConfigWatcher","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5773987,"name":"CompositorTileWorker1","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":66226363,"imageIndex":5},{"imageOffset":100635997,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5773988,"name":"Chrome_InProcGpuThread","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5773989,"name":"Chrome_ChildIOThread","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":39366,"symbol":"kevent64","symbolLocation":10,"imageIndex":1},{"imageOffset":66462919,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5773990,"name":"NetworkConfigWatcher","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5773991,"name":"VizCompositorThread","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774001,"name":"NetworkService","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":39366,"symbol":"kevent64","symbolLocation":10,"imageIndex":1},{"imageOffset":66462919,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774002,"name":"NetworkConfigWatcher","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774003,"name":"ThreadPoolSingleThreadForegroundBlocking0","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66014559,"imageIndex":5},{"imageOffset":66017292,"imageIndex":5},{"imageOffset":66016365,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774036,"name":"NetworkConfigWatcher","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774075,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774076,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774077,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774078,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774079,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774080,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774081,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774082,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774083,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774084,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774085,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":29102,"symbol":"poll","symbolLocation":10,"imageIndex":1},{"imageOffset":295686,"symbol":"method_vectorcall_FASTCALL","symbolLocation":278,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135592,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25880,"imageIndex":7},{"imageOffset":1149699,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":261297,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135266,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25554,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269913,"symbol":"method_vectorcall","symbolLocation":441,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774086,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":375898,"symbol":"calliter_iternext","symbolLocation":74,"imageIndex":7},{"imageOffset":1133502,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":23790,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774087,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":1500838,"symbol":"PyThread_acquire_lock_timed","symbolLocation":454,"imageIndex":7},{"imageOffset":5502,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":526,"imageIndex":8},{"imageOffset":4390,"symbol":"_queue_SimpleQueue_get","symbolLocation":198,"imageIndex":8},{"imageOffset":516285,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":125,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135435,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25723,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1137033,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":27321,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":1146380,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1135230,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25518,"imageIndex":7},{"imageOffset":261416,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":269746,"symbol":"method_vectorcall","symbolLocation":274,"imageIndex":7},{"imageOffset":1822790,"symbol":"t_bootstrap","symbolLocation":70,"imageIndex":7},{"imageOffset":1499897,"symbol":"pythread_wrapper","symbolLocation":25,"imageIndex":7},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774168,"name":"MemoryInfra","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774169,"name":"ThreadPoolSingleThreadSharedBackgroundBlocking1","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66014559,"imageIndex":5},{"imageOffset":66016570,"imageIndex":5},{"imageOffset":66016173,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774391,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774392,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774393,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774394,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774395,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774396,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774397,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774398,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":126947,"symbol":"th_worker(void*)","symbolLocation":115,"imageIndex":9},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774753,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774754,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774755,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774756,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774757,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774758,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774759,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774760,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5774761,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":10},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775524,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775525,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775526,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775527,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775528,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775529,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775530,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775531,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775532,"frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":3347615,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":5775536,"name":"com.apple.NSEventThread","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":523761,"symbol":"__CFRunLoopServiceMachPort","symbolLocation":319,"imageIndex":12},{"imageOffset":517295,"symbol":"__CFRunLoopRun","symbolLocation":1329,"imageIndex":12},{"imageOffset":514217,"symbol":"CFRunLoopRunSpecific","symbolLocation":567,"imageIndex":12},{"imageOffset":1757144,"symbol":"_NSEventThread","symbolLocation":132,"imageIndex":13},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8738892,"name":"ThreadPoolBackgroundWorker","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66014559,"imageIndex":5},{"imageOffset":66017292,"imageIndex":5},{"imageOffset":66016125,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8741115,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66014559,"imageIndex":5},{"imageOffset":66017292,"imageIndex":5},{"imageOffset":66016269,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8741873,"name":"NetworkConfigWatcher","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66258831,"imageIndex":5},{"imageOffset":65429641,"imageIndex":5},{"imageOffset":65925532,"imageIndex":5},{"imageOffset":65630200,"imageIndex":5},{"imageOffset":66065496,"imageIndex":5},{"imageOffset":66065898,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8743932,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8744946,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8748446,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8748447,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8751481,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8751495,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8751518,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8751864,"name":"ThreadPoolBackgroundWorker","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66014559,"imageIndex":5},{"imageOffset":66017292,"imageIndex":5},{"imageOffset":66016125,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8752024,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8752026,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8752163,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8752173,"name":"QFileInfoGatherer","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":2109867,"imageIndex":14},{"imageOffset":2109726,"symbol":"QWaitCondition::wait(QMutex*, QDeadlineTimer)","symbolLocation":94,"imageIndex":14},{"imageOffset":4541821,"symbol":"QFileInfoGatherer::run()","symbolLocation":125,"imageIndex":15},{"imageOffset":2067267,"imageIndex":14},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8752178,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8752335,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":2746,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":1},{"imageOffset":66259398,"imageIndex":5},{"imageOffset":66014559,"imageIndex":5},{"imageOffset":66017292,"imageIndex":5},{"imageOffset":66016269,"imageIndex":5},{"imageOffset":66229416,"imageIndex":5},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8752425,"name":"QFileInfoGatherer","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":2109867,"imageIndex":14},{"imageOffset":2109726,"symbol":"QWaitCondition::wait(QMutex*, QDeadlineTimer)","symbolLocation":94,"imageIndex":14},{"imageOffset":4541821,"symbol":"QFileInfoGatherer::run()","symbolLocation":125,"imageIndex":15},{"imageOffset":2067267,"imageIndex":14},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8752429,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8752643,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8752699,"name":"QFileInfoGatherer","frames":[{"imageOffset":140705659087168,"imageIndex":0},{"imageOffset":13574,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":1},{"imageOffset":2109867,"imageIndex":14},{"imageOffset":2109726,"symbol":"QWaitCondition::wait(QMutex*, QDeadlineTimer)","symbolLocation":94,"imageIndex":14},{"imageOffset":4541821,"symbol":"QFileInfoGatherer::run()","symbolLocation":125,"imageIndex":15},{"imageOffset":2067267,"imageIndex":14},{"imageOffset":25844,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":6},{"imageOffset":8207,"symbol":"thread_start","symbolLocation":15,"imageIndex":6}]},{"id":8752747,"frames":[{"imageOffset":141332,"imageIndex":4}]},{"id":8752748,"frames":[{"imageOffset":141332,"imageIndex":4}]}],
"usedImages" : [
{
"size" : 0,
"source" : "A",
"base" : 0,
"uuid" : "00000000-0000-0000-0000-000000000000"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703237083136,
"size" : 225280,
"uuid" : "c1d58a50-5a4d-3bcb-a1fc-ec0902ce34d3",
"path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
"name" : "libsystem_kernel.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703236067328,
"size" : 561152,
"uuid" : "4b160c81-ec52-3243-aaba-49f719bbf617",
"path" : "\/usr\/lib\/system\/libsystem_c.dylib",
"name" : "libsystem_c.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703237406720,
"size" : 40960,
"uuid" : "f4a8a6fb-7eb7-3794-9196-39b494573a33",
"path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
"name" : "libsystem_platform.dylib"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 140703124963328,
"size" : 196608,
"uuid" : "faca02c7-0a4c-3629-a746-55ddcfee9116",
"path" : "\/usr\/libexec\/rosetta\/runtime",
"name" : "runtime"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 5303779328,
"size" : 165068800,
"uuid" : "c9795830-14cd-3b40-983d-a3143cd9cbd9",
"path" : "\/Applications\/ChimeraX-1.4.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" : 140703237308416,
"size" : 49152,
"uuid" : "ee564342-d8f2-396d-b642-40092cf34d82",
"path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
"name" : "libsystem_pthread.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 4520898560,
"CFBundleShortVersionString" : "3.9.11, (c) 2001-2021 Python Software Foundation.",
"CFBundleIdentifier" : "org.python.python",
"size" : 2527232,
"uuid" : "ef9cc1f4-5991-3213-9a9e-e68c578b6c1b",
"path" : "\/Applications\/ChimeraX-1.4.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/Python",
"name" : "Python",
"CFBundleVersion" : "3.9.11"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 5186560000,
"size" : 8192,
"uuid" : "1eae6074-8612-3bc6-b16b-c173a995e90c",
"path" : "\/Applications\/ChimeraX-1.4.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/lib-dynload\/_queue.cpython-39-darwin.so",
"name" : "_queue.cpython-39-darwin.so"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 5296951296,
"size" : 147456,
"uuid" : "c77aa6bd-464f-397d-9361-6e5f3450a851",
"path" : "\/Applications\/ChimeraX-1.4.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/numexpr\/interpreter.cpython-39-darwin.so",
"name" : "interpreter.cpython-39-darwin.so"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 6236905472,
"size" : 62603264,
"uuid" : "9112000d-375c-34f0-9a66-9d68f91a12cd",
"path" : "\/Applications\/ChimeraX-1.4.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/scipy\/.dylibs\/libopenblas.0.dylib",
"name" : "libopenblas.0.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 4613910528,
"size" : 63488000,
"uuid" : "10431d8f-5e3b-3bbc-abd5-81f6a73a5269",
"path" : "\/Applications\/ChimeraX-1.4.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" : 140703237623808,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.CoreFoundation",
"size" : 5246976,
"uuid" : "1d1db08b-810c-316e-b9d9-eecdff8ee6e3",
"path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
"name" : "CoreFoundation",
"CFBundleVersion" : "1856.107"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703281225728,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.AppKit",
"size" : 15278080,
"uuid" : "9d3ab204-4858-3120-b002-5c38b02edec4",
"path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
"name" : "AppKit",
"CFBundleVersion" : "2113.30.116"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 5017649152,
"size" : 5226496,
"uuid" : "97d356c9-7652-3ff7-be10-198e30670243",
"path" : "\/Applications\/ChimeraX-1.4.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/PyQt6\/Qt6\/lib\/QtCore.framework\/Versions\/A\/QtCore",
"name" : "QtCore"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 5102268416,
"size" : 6815744,
"uuid" : "1d3e67c7-22f9-33ac-a03a-446da81fdc43",
"path" : "\/Applications\/ChimeraX-1.4.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/PyQt6\/Qt6\/lib\/QtGui.framework\/Versions\/A\/QtGui",
"name" : "QtGui"
}
],
"sharedCache" : {
"base" : 140703234064384,
"size" : 15218196480,
"uuid" : "5c9ff5db-8827-329a-8a37-2483935a9ea1"
},
"vmSummary" : "ReadOnly portion of Libraries: Total=1.6G resident=0K(0%) swapped_out_or_unallocated=1.6G(100%)\nWritable regions: Total=11.5G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=11.5G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 1536K 12 \nActivity Tracing 256K 1 \nCG backing stores 3520K 8 \nCG image 1480K 94 \nCG raster data 180K 3 \nColorSync 244K 29 \nCoreAnimation 3692K 101 \nCoreGraphics 44K 10 \nCoreServices 624K 2 \nCoreUI image data 5328K 49 \nFoundation 56K 2 \nKernel Alloc Once 12K 2 \nMALLOC 9.3G 1582 \nMALLOC guard page 192K 9 \nMALLOC_LARGE (reserved) 22.5M 1 reserved VM address space (unallocated)\nMALLOC_MEDIUM (reserved) 528.0M 7 reserved VM address space (unallocated)\nMALLOC_NANO (reserved) 256.0M 1 reserved VM address space (unallocated)\nMach message 24K 6 \nOpenGL GLSL 384K 4 \nRosetta Arena 4096K 2 \nRosetta Generic 1792K 445 \nRosetta JIT 128.0M 1 \nRosetta Return Stack 1560K 156 \nRosetta Thread Context 1560K 156 \nSTACK GUARD 60K 15 \nStack 391.0M 78 \nStack Guard 56.3M 63 \nVM_ALLOCATE 183.9M 407 \nVM_ALLOCATE (reserved) 352.0M 14 reserved VM address space (unallocated)\n__DATA 50.5M 831 \n__DATA_CONST 30.2M 343 \n__DATA_DIRTY 1624K 214 \n__FONT_DATA 4K 1 \n__GLSLBUILTINS 5176K 1 \n__LINKEDIT 750.4M 288 \n__OBJC_RO 81.8M 1 \n__OBJC_RW 3136K 2 \n__TEXT 876.5M 806 \n__UNICODE 588K 1 \ndyld private memory 1280K 3 \nmapped file 5.3G 1501 \nshared memory 3084K 25 \nunshared pmap 10.3M 8 \n=========== ======= ======= \nTOTAL 18.2G 7285 \nTOTAL, minus reserved VM space 17.1G 7285 \n",
"legacyInfo" : {
"threadTriggered" : {
"name" : "CrBrowserMain",
"queue" : "com.apple.main-thread"
}
},
"trialInfo" : {
"rollouts" : [
{
"rolloutId" : "607844aa04477260f58a8077",
"factorPackIds" : {
"SIRI_MORPHUN_ASSETS" : "6103050cbfe6dc472e1c982a"
},
"deploymentId" : 240000066
},
{
"rolloutId" : "60da5e84ab0ca017dace9abf",
"factorPackIds" : {
},
"deploymentId" : 240000008
},
{
"rolloutId" : "602ad4dac86151000cf27e46",
"factorPackIds" : {
"SIRI_DICTATION_ASSETS" : "61fb0e87c773c43cde3bb80e"
},
"deploymentId" : 240000303
},
{
"rolloutId" : "601d9415f79519000ccd4b69",
"factorPackIds" : {
"SIRI_TEXT_TO_SPEECH" : "622657ce37186c771d5404ad"
},
"deploymentId" : 240000416
},
{
"rolloutId" : "5fb4245a1bbfe8005e33a1e1",
"factorPackIds" : {
},
"deploymentId" : 240000015
},
{
"rolloutId" : "5ffde50ce2aacd000d47a95f",
"factorPackIds" : {
},
"deploymentId" : 240000167
},
{
"rolloutId" : "60186475825c62000ccf5450",
"factorPackIds" : {
"SIRI_VALUE_INFERENCE_CONTACT_RESOLUTION" : "62bdc4218fe09c1632d841e9"
},
"deploymentId" : 240000023
},
{
"rolloutId" : "5fc94383418129005b4e9ae0",
"factorPackIds" : {
},
"deploymentId" : 240000401
}
],
"experiments" : [
]
}
}
===== Log before crash start =====
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/Andrew/Nextcloud/CaMKII/modelling crosslinks/first run with one
> set/active_R close
> open "/Users/Andrew/Nextcloud/CaMKII/modelling
> crosslinks/active_R>1/IHP_R>1.cxs" format session
No such file/path: /Users/Andrew/Nextcloud/CaMKII/modelling
crosslinks/active_R>1/IHP_R>1.cxs
> open "/Users/Andrew/Nextcloud/CaMKII/modelling
> crosslinks/active_R>1/IHP_R>1.cxs" format session
No such file/path: /Users/Andrew/Nextcloud/CaMKII/modelling
crosslinks/active_R>1/IHP_R>1.cxs
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/first run with one
> set/active_R>1/IHP_R>1.cxs"
opened ChimeraX session
> show #5 models
> hide #5 models
> hide #6 models
> select #4/A:37
17 atoms, 16 bonds, 1 residue, 1 model selected
> select #A/3:137
Expected an objects specifier or a keyword
> select #3/B:37
17 atoms, 16 bonds, 1 residue, 1 model selected
> surface hidePatches (#!3 & sel)
> open /Users/Andrew/Desktop/active30.pb
Line 0 "#4/A:137 #3/B:47
", got 22 atoms for spec "#4/A:137", require exactly 1
> open /Users/Andrew/Desktop/active30.pb
Opened Pseudobonds active30.pb, 20 bonds
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/Active_30min.cxs"
> ui mousemode right zoom
> ui mousemode right "translate selected models"
> view matrix models #3,1,0,0,34.868,0,1,0,-6.9818,0,0,1,-67.117
> undo
> select add #4
7265 atoms, 7348 bonds, 11 pseudobonds, 460 residues, 5 models selected
> select add #3
14499 atoms, 14667 bonds, 22 pseudobonds, 918 residues, 7 models selected
> select subtract #3
7248 atoms, 7332 bonds, 11 pseudobonds, 459 residues, 5 models selected
> select add #1
94445 atoms, 95537 bonds, 23 pseudobonds, 5967 residues, 12 models selected
> view matrix models
> #1,0.75305,-0.65519,0.060313,138.35,0.65568,0.73965,-0.15162,126.1,0.054732,0.15373,0.9866,-105.7,#4,1,0,0,6.1521,0,1,0,-16.259,0,0,1,-17.612,#5,1,0,0,0,0,1,0,0,0,0,1,0
> view matrix models
> #1,0.75305,-0.65519,0.060313,152.86,0.65568,0.73965,-0.15162,133.99,0.054732,0.15373,0.9866,-111.24,#4,1,0,0,20.668,0,1,0,-8.372,0,0,1,-23.152,#5,1,0,0,0,0,1,0,0,0,0,1,0
> view matrix models
> #1,0.75305,-0.65519,0.060313,156.95,0.65568,0.73965,-0.15162,130.89,0.054732,0.15373,0.9866,-112.35,#4,1,0,0,24.757,0,1,0,-11.465,0,0,1,-24.269,#5,1,0,0,0,0,1,0,0,0,0,1,0
> view matrix models
> #1,0.75305,-0.65519,0.060313,169.43,0.65568,0.73965,-0.15162,121.52,0.054732,0.15373,0.9866,-112.32,#4,1,0,0,37.236,0,1,0,-20.834,0,0,1,-24.233,#5,1,0,0,0,0,1,0,0,0,0,1,0
> view matrix models
> #1,0.75305,-0.65519,0.060313,167.22,0.65568,0.73965,-0.15162,119.04,0.054732,0.15373,0.9866,-116,#4,1,0,0,35.031,0,1,0,-23.32,0,0,1,-27.914,#5,1,0,0,0,0,1,0,0,0,0,1,0
> view matrix models
> #1,0.75305,-0.65519,0.060313,159.71,0.65568,0.73965,-0.15162,101.54,0.054732,0.15373,0.9866,-115,#4,1,0,0,27.512,0,1,0,-40.823,0,0,1,-26.91,#5,1,0,0,0,0,1,0,0,0,0,1,0
> view matrix models
> #1,0.75305,-0.65519,0.060313,155.71,0.65568,0.73965,-0.15162,93.825,0.054732,0.15373,0.9866,-116.87,#4,1,0,0,23.512,0,1,0,-48.532,0,0,1,-28.781,#5,1,0,0,0,0,1,0,0,0,0,1,0
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.62871,-0.77659,0.040349,230.02,0.76857,0.61264,-0.18433,107.08,0.11843,0.1469,0.98204,-131.48,#4,0.9847,-0.16829,-0.045164,119.83,0.16626,0.98503,-0.045617,-59.143,0.052165,0.03741,0.99794,-55.802,#5,1,0,0,0,0,1,0,0,0,0,1,0
> view matrix models
> #1,0.63102,-0.76398,0.13472,199.44,0.76537,0.58478,-0.26878,139.4,0.12656,0.27272,0.95373,-161.07,#4,0.98387,-0.17176,0.050012,98.231,0.17701,0.97513,-0.13339,-34.568,-0.025858,0.14009,0.9898,-90.405,#5,1,0,0,0,0,1,0,0,0,0,1,0
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.63102,-0.76398,0.13472,183.41,0.76537,0.58478,-0.26878,152.3,0.12656,0.27272,0.95373,-145.01,#4,0.98387,-0.17176,0.050012,82.208,0.17701,0.97513,-0.13339,-21.669,-0.025858,0.14009,0.9898,-74.35,#5,1,0,0,0,0,1,0,0,0,0,1,0
> ui mousemode right zoom
> ui mousemode right select
> select clear
> ui mousemode right zoom
> save /Users/Andrew/Desktop/image7.png supersample 3
> ui tool show "Side View"
> save /Users/Andrew/Desktop/image8.png supersample 3
> ui mousemode right zoom
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/active150.pb"
Opened Pseudobonds active150.pb, 43 bonds
> hide #7 models
> show #7 models
> hide #7 models
> undo
> show #7 models
> hide #8 models
> select add #2
87197 atoms, 88205 bonds, 12 pseudobonds, 5508 residues, 24 models selected
> select add #1
174394 atoms, 176410 bonds, 24 pseudobonds, 11016 residues, 60 models selected
> transparency 50
> transparency 30
> transparency 70
> transparency cartoon 70
Missing or invalid "percent" argument: Expected a number
> show #8 models
> hide #7 models
> hide #8 models
> show #7 models
> show #8 models
> hide #8 models
> show #8 models
> hide #7 models
> transparency 70 cartoons
> transparency 0 cartoons
> transparency sel 70 cartoons
> transparency sel 50 cartoons
> transparency sel 70
> transparency sel 80
> transparency sel 20 cartoons
> transparency #1 20 cartoons
> transparency #1 20
> transparency #1 0 cartoons
> transparency #1 90 cartoons
> transparency #1 10 cartoons
> transparency #1 70 surfaces
> transparency #1 70 cs
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> transparency #1 70 cartoons & s
Expected ',' or a keyword
> transparency #1 70 cartoons, surfaces
> transparency sel 70 cartoons, surfaces
> surface hidePatches (#!1-2 & sel)
> transparency sel 70 cartoons, surfaces
> transparency sel 20 cartoons, surfaces
> transparency sel 50 cartoons, surfaces
> surface (#!1-2 & sel)
> surface (#3-4)
> surface (#3-4) hide
Expected a keyword
> hide surfaces (#3-4)
Expected ',' or a keyword
> hide (#3-4) surfaces
> close
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/Active_30min.cxs" format session
opened ChimeraX session
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/active150.pb"
Opened Pseudobonds active150.pb, 43 bonds
> hide #7 models
> select add #1
87214 atoms, 88221 bonds, 12 pseudobonds, 5509 residues, 9 models selected
> select add #4
94462 atoms, 95553 bonds, 23 pseudobonds, 5968 residues, 24 models selected
> select add #3
101696 atoms, 102872 bonds, 34 pseudobonds, 6426 residues, 26 models selected
> select subtract #3
94445 atoms, 95537 bonds, 23 pseudobonds, 5967 residues, 25 models selected
> select add #5
94445 atoms, 95537 bonds, 54 pseudobonds, 5967 residues, 24 models selected
> select subtract #5
94445 atoms, 95537 bonds, 13 pseudobonds, 5967 residues, 23 models selected
> close #5
> close #6
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.75305,-0.65519,0.060313,142.97,0.65568,0.73965,-0.15162,125.39,0.054732,0.15373,0.9866,-102.5,#4,1,0,0,10.772,0,1,0,-16.972,0,0,1,-14.415
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.4951,-0.85845,0.13396,251.38,0.86844,0.49363,-0.046309,105.31,-0.026373,0.13926,0.9899,-76.699,#4,0.94336,-0.33064,0.027295,176.15,0.32776,0.94156,0.077728,-65.212,-0.0514,-0.064379,0.9966,27.047
> view matrix models
> #1,0.37665,-0.91372,0.1525,294.78,0.9245,0.38119,0.00055661,107.99,-0.058639,0.14077,0.9883,-67.653,#4,0.8915,-0.45199,0.030606,243.97,0.44647,0.88804,0.10975,-67.783,-0.076784,-0.084175,0.99349,41.992
> view matrix models
> #1,0.49754,-0.82462,0.26918,203.32,0.86673,0.48514,-0.11582,127.62,-0.035087,0.29093,0.9561,-107.27,#4,0.93119,-0.32452,0.16604,141.05,0.32784,0.9447,0.0077523,-49.524,-0.15938,0.047217,0.98609,-6.0646
> view matrix models
> #1,0.32769,-0.88039,0.34283,245.79,0.94406,0.31937,-0.082211,143.03,-0.037112,0.35059,0.93579,-117.73,#4,0.84427,-0.48831,0.22083,223.15,0.49671,0.86769,0.019657,-44.428,-0.20121,0.093092,0.97511,-18.488
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.32769,-0.88039,0.34283,234.01,0.94406,0.31937,-0.082211,133.99,-0.037112,0.35059,0.93579,-113.32,#4,0.84427,-0.48831,0.22083,211.37,0.49671,0.86769,0.019657,-53.468,-0.20121,0.093092,0.97511,-14.084
> view matrix models
> #1,0.32769,-0.88039,0.34283,215.65,0.94406,0.31937,-0.082211,140.51,-0.037112,0.35059,0.93579,-112.96,#4,0.84427,-0.48831,0.22083,193.01,0.49671,0.86769,0.019657,-46.942,-0.20121,0.093092,0.97511,-13.725
> view matrix models
> #1,0.32769,-0.88039,0.34283,214.33,0.94406,0.31937,-0.082211,134.7,-0.037112,0.35059,0.93579,-110.96,#4,0.84427,-0.48831,0.22083,191.69,0.49671,0.86769,0.019657,-52.757,-0.20121,0.093092,0.97511,-11.716
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.20851,-0.88247,0.42164,226.13,0.9779,0.18145,-0.10385,169.96,0.015136,0.43397,0.9008,-139.12,#4,0.76064,-0.57993,0.29174,233.84,0.61126,0.79115,-0.021038,-25.326,-0.21861,0.19433,0.95627,-53.652
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.20851,-0.88247,0.42164,216,0.9779,0.18145,-0.10385,170.68,0.015136,0.43397,0.9008,-136.91,#4,0.76064,-0.57993,0.29174,223.7,0.61126,0.79115,-0.021038,-24.6,-0.21861,0.19433,0.95627,-51.446
> view matrix models
> #1,0.20851,-0.88247,0.42164,204.83,0.9779,0.18145,-0.10385,163.23,0.015136,0.43397,0.9008,-131.1,#4,0.76064,-0.57993,0.29174,212.54,0.61126,0.79115,-0.021038,-32.054,-0.21861,0.19433,0.95627,-45.633
> view matrix models
> #1,0.20851,-0.88247,0.42164,209.36,0.9779,0.18145,-0.10385,162.22,0.015136,0.43397,0.9008,-146.54,#4,0.76064,-0.57993,0.29174,217.07,0.61126,0.79115,-0.021038,-33.061,-0.21861,0.19433,0.95627,-61.077
> view matrix models
> #1,0.20851,-0.88247,0.42164,206.71,0.9779,0.18145,-0.10385,163.08,0.015136,0.43397,0.9008,-138.23,#4,0.76064,-0.57993,0.29174,214.42,0.61126,0.79115,-0.021038,-32.207,-0.21861,0.19433,0.95627,-52.767
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.25914,-0.91641,0.30502,234.76,0.95697,0.28633,0.047235,97.193,-0.13062,0.27965,0.95118,-68.357,#4,0.81397,-0.55417,0.17423,221.4,0.53589,0.83209,0.14299,-79.507,-0.22422,-0.023022,0.97427,50.38
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.25914,-0.91641,0.30502,234.33,0.95697,0.28633,0.047235,99.499,-0.13062,0.27965,0.95118,-73.003,#4,0.81397,-0.55417,0.17423,220.96,0.53589,0.83209,0.14299,-77.201,-0.22422,-0.023022,0.97427,45.733
> ui mousemode right zoom
> ui mousemode right translate
> ui mousemode right select
> select clear
> show #7 models
> hide #8 models
> save /Users/Andrew/Desktop/image7.png supersample 3
> show #8 models
> hide #7 models
> save /Users/Andrew/Desktop/image8.png supersample 3
> ui mousemode right zoom
> select add #4
7248 atoms, 7332 bonds, 1 pseudobond, 459 residues, 2 models selected
> select add #1
94445 atoms, 95537 bonds, 13 pseudobonds, 5967 residues, 11 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.25914,-0.91641,0.30502,234.88,0.95697,0.28633,0.047235,101.09,-0.13062,0.27965,0.95118,-76.277,#4,0.81397,-0.55417,0.17423,221.52,0.53589,0.83209,0.14299,-75.612,-0.22422,-0.023022,0.97427,42.46
> view matrix models
> #1,0.25914,-0.91641,0.30502,234.81,0.95697,0.28633,0.047235,103.72,-0.13062,0.27965,0.95118,-80.56,#4,0.81397,-0.55417,0.17423,221.45,0.53589,0.83209,0.14299,-72.978,-0.22422,-0.023022,0.97427,38.177
> ui mousemode right "rotate selected models"
> ui mousemode right rotate
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.25914,-0.91641,0.30502,226.53,0.95697,0.28633,0.047235,105.12,-0.13062,0.27965,0.95118,-82.289,#4,0.81397,-0.55417,0.17423,213.17,0.53589,0.83209,0.14299,-71.582,-0.22422,-0.023022,0.97427,36.448
> view matrix models
> #1,0.25914,-0.91641,0.30502,226.47,0.95697,0.28633,0.047235,105.12,-0.13062,0.27965,0.95118,-82.276,#4,0.81397,-0.55417,0.17423,213.11,0.53589,0.83209,0.14299,-71.578,-0.22422,-0.023022,0.97427,36.46
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/Active_30_150.cxs"
> ui mousemode right zoom
> ui mousemode right select
> select clear
> ui mousemode right rotate
> ui mousemode right translate
> show #7 models
> hide #8 models
> save /Users/Andrew/Desktop/image9.png supersample 3
> show #8 models
> hide #7 models
> save /Users/Andrew/Desktop/image10.png supersample 3
> ui mousemode right zoom
> hide #8 models
> show #7 models
> save /Users/Andrew/Desktop/image7.png supersample 3
> show #8 models
> hide #7 models
> save /Users/Andrew/Desktop/image8.png supersample 3
> select clear
> save /Users/Andrew/Desktop/image7.png supersample 3
> show #7 models
> hide #8 models
> save /Users/Andrew/Desktop/image8.png supersample 3
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/Active_30_150.cxs"
> close
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/first run with one
> set/active_R open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/basal_30.pb"
Opened Pseudobonds basal_30.pb, 3 bonds
> hide #11 models
> hide #10 models
> hide #9 models
> close #3, #5
Expected a models specifier or a keyword
> close #3
> close #5
> close #6
> close #8
> close #9
> close #10
> close #11
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/Basal_30_150.cxs"
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/basal_150.pb"
Opened Pseudobonds basal_150.pb, 8 bonds
> hide #12 models
> show #12 models
> hide #3 models
> save /Users/Andrew/Desktop/image7.png supersample 3
> show #3 models
> hide #12 models
> save /Users/Andrew/Desktop/image8.png supersample 3
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_basal_30_150_within_holo.cxs"
> close
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/Active_30_150.cxs" format session
No such file/path: /Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
analyses/Active_30_150.cxs
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/Active_30_150.cxs" format session
No such file/path: /Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
analyses/Active_30_150.cxs
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_Active_30_150.cxs"
opened ChimeraX session
> close #7
> close #8
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_basal_30_IHP.pb" "/Users/Andrew/Nextcloud/CaMKII/modelling
> crosslinks/2nd analyses/het_basal_150_IHP.pb"
Opened Pseudobonds het_basal_30_IHP.pb, 3 bonds
Opened Pseudobonds het_basal_150_IHP.pb, 8 bonds
> hide #6 models
> show #6 models
> hide #5 models
> show #5 models
> hide #5 models
> undo
> select add #4
7248 atoms, 7332 bonds, 1 pseudobond, 459 residues, 2 models selected
> select add #1
94445 atoms, 95537 bonds, 13 pseudobonds, 5967 residues, 11 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.25914,-0.91641,0.30502,228.45,0.95697,0.28633,0.047235,63.082,-0.13062,0.27965,0.95118,-10.962,#4,0.81397,-0.55417,0.17423,215.09,0.53589,0.83209,0.14299,-113.62,-0.22422,-0.023022,0.97427,107.77
> view matrix models
> #1,0.25914,-0.91641,0.30502,236.92,0.95697,0.28633,0.047235,90.881,-0.13062,0.27965,0.95118,11.455,#4,0.81397,-0.55417,0.17423,223.56,0.53589,0.83209,0.14299,-85.819,-0.22422,-0.023022,0.97427,130.19
> view matrix models
> #1,0.25914,-0.91641,0.30502,238.95,0.95697,0.28633,0.047235,90.727,-0.13062,0.27965,0.95118,32.425,#4,0.81397,-0.55417,0.17423,225.59,0.53589,0.83209,0.14299,-85.973,-0.22422,-0.023022,0.97427,151.16
> view matrix models
> #1,0.25914,-0.91641,0.30502,239.19,0.95697,0.28633,0.047235,92.138,-0.13062,0.27965,0.95118,43.845,#4,0.81397,-0.55417,0.17423,225.82,0.53589,0.83209,0.14299,-84.562,-0.22422,-0.023022,0.97427,162.58
> view matrix models
> #1,0.25914,-0.91641,0.30502,222.37,0.95697,0.28633,0.047235,82.944,-0.13062,0.27965,0.95118,59.268,#4,0.81397,-0.55417,0.17423,209.01,0.53589,0.83209,0.14299,-93.756,-0.22422,-0.023022,0.97427,178
> view matrix models
> #1,0.25914,-0.91641,0.30502,215.01,0.95697,0.28633,0.047235,117.8,-0.13062,0.27965,0.95118,58.333,#4,0.81397,-0.55417,0.17423,201.65,0.53589,0.83209,0.14299,-58.898,-0.22422,-0.023022,0.97427,177.07
> ui mousemode right zoom
> crosslinks minimize #6 moveModels (#1 & #4)
No structures specified for minimizing crosslinks.
> crosslinks minimize #6 moveModels (#1,4)
8 crosslinks, lengths: 42.8, 42.3, 34.5, 32.7, 32.3, 26.9, 24.8, 16.6
> undo
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.25914,-0.91641,0.30502,183.46,0.95697,0.28633,0.047235,25.673,-0.13062,0.27965,0.95118,-92.2,#4,0.81397,-0.55417,0.17423,170.1,0.53589,0.83209,0.14299,-151.03,-0.22422,-0.023022,0.97427,26.537
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.38508,-0.63455,-0.67011,342.18,0.65902,0.69739,-0.28167,85.927,0.64606,-0.33315,0.68674,-63.788,#4,0.66533,-0.11525,-0.7376,205.67,0.022364,0.99065,-0.13462,-69.913,0.74622,0.073069,0.66168,-114.55
> view matrix models
> #1,-0.52966,0.32799,-0.78223,359.8,0.22986,0.94321,0.23984,-8.7858,0.81647,-0.052771,-0.57497,162.99,#4,-0.66093,0.013915,-0.75032,379.09,-0.43042,0.812,0.3942,-32.757,0.61474,0.58349,-0.53069,-48.088
> view matrix models
> #1,-0.52911,0.32745,-0.78282,359.96,0.22796,0.94348,0.24058,-8.536,0.81736,-0.051157,-0.57385,161.98,#4,-0.66021,0.013963,-0.75095,379.1,-0.43199,0.81084,0.39487,-32.077,0.61442,0.5851,-0.52929,-49.163
> view matrix models
> #1,-0.76437,0.29146,-0.57514,377.53,0.21601,0.95621,0.19749,3.3042,0.60752,0.026722,-0.79386,260.36,#4,-0.80126,-0.19841,-0.56446,461.98,-0.45193,0.81895,0.35366,-22.385,0.3921,0.53847,-0.74586,66.177
> view matrix models
> #1,-0.87274,0.30344,-0.38242,350.84,0.18585,0.93089,0.31449,-13.777,0.45142,0.20339,-0.86882,275.55,#4,-0.87909,-0.28982,-0.37842,474.97,-0.45099,0.76271,0.46355,-21.905,0.15428,0.57816,-0.8012,102.27
> view matrix models
> #1,-0.94505,0.26696,-0.1887,327.07,0.148,0.86404,0.48118,-31.11,0.2915,0.42681,-0.85607,254.13,#4,-0.89796,-0.39358,-0.19686,484.46,-0.42564,0.66317,0.61566,-15.02,-0.11176,0.63663,-0.76303,111.07
> view matrix models
> #1,-0.98979,0.093857,0.10723,305.24,0.13267,0.88158,0.45301,-23.855,-0.052015,0.46261,-0.88503,348.26,#4,-0.80039,-0.59583,0.066049,501.68,-0.45037,0.67037,0.58972,-7.8041,-0.39565,0.44226,-0.8049,266.7
> view matrix models
> #1,-0.93774,0.29404,0.18491,212.9,0.29769,0.95463,-0.008331,38.64,-0.17897,0.047233,-0.98272,527.38,#4,-0.88766,-0.42541,0.17631,406.34,-0.40179,0.90255,0.15483,-23.092,-0.22499,0.066593,-0.97208,462.02
> crosslinks minimize #6 moveModels (#1-4)
8 crosslinks, lengths: 42.8, 42.3, 34.5, 32.7, 32.3, 26.9, 24.8, 16.6
> undo
> crosslinks minimize #6 moveModels (sel)
8 crosslinks, lengths: 42.8, 42.3, 34.5, 32.7, 32.3, 26.9, 24.8, 16.6
> close
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_Active_30_150.cxs" format session
opened ChimeraX session
> close #7
> close #8
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_basal_30_IHP.pb" "/Users/Andrew/Nextcloud/CaMKII/modelling
> crosslinks/2nd analyses/het_basal_150_IHP.pb"
Opened Pseudobonds het_basal_30_IHP.pb, 3 bonds
Opened Pseudobonds het_basal_150_IHP.pb, 8 bonds
> select add #4
7248 atoms, 7332 bonds, 1 pseudobond, 459 residues, 2 models selected
> select subtract #4
1 model selected
> select add #4
7248 atoms, 7332 bonds, 1 pseudobond, 459 residues, 2 models selected
> select add #1
94445 atoms, 95537 bonds, 13 pseudobonds, 5967 residues, 11 models selected
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_basal_30_150_IHP.cxs"
> hide #5 models
> hide #6 models
> show #5 models
> hide #5 models
> show #6 models
> crosslinks minimize #6 moveModels (#1,#4)
Invalid "moveModels" argument: invalid structures specifier
> crosslinks minimize #6 moveModels (#1,4)
8 crosslinks, lengths: 42.8, 42.3, 34.5, 32.7, 32.3, 26.9, 24.8, 16.6
> align #4/A movemodels #1
Expected a keyword
> align #1 toAtoms #4/A move #1
Invalid "move" argument: Should be one of 'atoms', 'chains', 'nothing',
'residues', 'structure atoms', or 'structures'
> align #1 toAtoms #4/A move structures #1
Expected a keyword
> align #1/A toAtoms #4/A move structures
RMSD between 7248 atom pairs is 0.000 angstroms
> view matrix models
> #1,-0.35755,-0.74604,0.56177,290.85,0.27276,0.49189,0.82683,-43.368,-0.89317,0.44886,0.027615,352.36,#4,0.25343,-0.87143,0.41999,418.4,-0.067012,0.41731,0.90629,-14.085,-0.96503,-0.25783,0.047361,520.81
> undo
> ui mousemode right zoom
> ui mousemode right "rotate selected models"
> ui mousemode right zoom
> ui mousemode right "translate selected models"
> view matrix models
> #1,-0.1951,-0.7291,0.65601,211.74,0.48167,0.51142,0.71165,-73.419,-0.85436,0.45482,0.25141,280.95,#4,0.37035,-0.76667,0.52445,318.12,0.070566,0.58619,0.80709,-95.103,-0.92621,-0.2619,0.2712,464.56
> view matrix models
> #1,-0.1951,-0.7291,0.65601,211.6,0.48167,0.51142,0.71165,-71.763,-0.85436,0.45482,0.25141,284.41,#4,0.37035,-0.76667,0.52445,317.98,0.070566,0.58619,0.80709,-93.447,-0.92621,-0.2619,0.2712,468.02
> view matrix models
> #1,-0.1951,-0.7291,0.65601,211.47,0.48167,0.51142,0.71165,-69.893,-0.85436,0.45482,0.25141,289.04,#4,0.37035,-0.76667,0.52445,317.85,0.070566,0.58619,0.80709,-91.577,-0.92621,-0.2619,0.2712,472.65
> ui mousemode right "rotate selected models"
> view matrix models
> #1,-0.22307,-0.6949,0.68363,201.98,0.43113,0.55866,0.70854,-68.119,-0.87428,0.45278,0.17497,316.57,#4,0.32855,-0.7639,0.55544,316.22,0.0013625,0.58846,0.80852,-80.852,-0.94449,-0.26488,0.19438,496.25
> view matrix models
> #1,-0.22436,-0.69768,0.68037,204.04,0.42634,0.55754,0.71231,-67.521,-0.8763,0.44988,0.17236,318.67,#4,0.3292,-0.76631,0.55172,318.21,-0.0012811,0.58392,0.81181,-78.968,-0.94426,-0.26795,0.19124,498.49
> view matrix models
> #1,-0.21868,-0.68577,0.69419,195.25,0.44667,0.56215,0.69604,-69.945,-0.86756,0.46228,0.18338,309.67,#4,0.32651,-0.75587,0.5675,309.68,0.010023,0.60314,0.79758,-86.877,-0.94514,-0.25472,0.2045,488.89
> zoom
Pixel size at center of rotation is 0.252
> ui mousemode right zoom
> ui mousemode right select
> select clear
> ui mousemode right zoom
> show #5 models
> hide #6 models
> hide #5 models
> save /Users/Andrew/Desktop/image7.png supersample 3
> show #6 models
> ui tool show "Side View"
> save /Users/Andrew/Desktop/image7.png supersample 3
> show #5 models
> hide #6 models
> hide #5 models
> show #5 models
> save /Users/Andrew/Desktop/image7.png supersample 3
> view
> save /Users/Andrew/Desktop/image8.png supersample 3
> show #6 models
> hide #5 models
> save /Users/Andrew/Desktop/image9.png supersample 3
> show #5 models
> hide #6 models
> save /Users/Andrew/Desktop/image10.png supersample 3
> show #6 models
> hide #5 models
> save /Users/Andrew/Desktop/image11.png supersample 3
> select add #3
7251 atoms, 7335 bonds, 1 pseudobond, 459 residues, 2 models selected
> select add #2
94448 atoms, 95540 bonds, 13 pseudobonds, 5967 residues, 5 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #2,1,0,0,0.05347,0,1,0,-0.026049,0,0,1,-0.093687,#3,1,0,0,0.05347,0,1,0,-0.026049,0,0,1,-0.093687
> view matrix models
> #2,1,0,0,1.4531,0,1,0,-0.92785,0,0,1,-4.4644,#3,1,0,0,1.4531,0,1,0,-0.92785,0,0,1,-4.4644
> view matrix models
> #2,1,0,0,2.1494,0,1,0,-1.5287,0,0,1,-7.9664,#3,1,0,0,2.1494,0,1,0,-1.5287,0,0,1,-7.9664
> view matrix models
> #2,1,0,0,1.4544,0,1,0,-0.88128,0,0,1,-4.0548,#3,1,0,0,1.4544,0,1,0,-0.88128,0,0,1,-4.0548
> view matrix models
> #2,1,0,0,1.7296,0,1,0,-1.8112,0,0,1,-11.479,#3,1,0,0,1.7296,0,1,0,-1.8112,0,0,1,-11.479
> view matrix models
> #2,1,0,0,3.885,0,1,0,-2.6464,0,0,1,-16.509,#3,1,0,0,3.885,0,1,0,-2.6464,0,0,1,-16.509
> view matrix models
> #2,1,0,0,8.8149,0,1,0,0.52448,0,0,1,-10.586,#3,1,0,0,8.8149,0,1,0,0.52448,0,0,1,-10.586
> view matrix models
> #2,1,0,0,6.8968,0,1,0,4.0112,0,0,1,-2.6212,#3,1,0,0,6.8968,0,1,0,4.0112,0,0,1,-2.6212
> view matrix models
> #2,1,0,0,9.0141,0,1,0,7.4782,0,0,1,-4.8523,#3,1,0,0,9.0141,0,1,0,7.4782,0,0,1,-4.8523
> ui mousemode right zoom
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.98085,0.035879,-0.19145,57.898,-0.033061,0.99929,0.017893,11.928,0.19196,-0.011221,0.98134,-50.271,#3,0.98085,0.035879,-0.19145,57.898,-0.033061,0.99929,0.017893,11.928,0.19196,-0.011221,0.98134,-50.271
> view matrix models
> #2,0.97832,0.038098,-0.20356,61.365,-0.034589,0.99919,0.020768,11.584,0.20418,-0.013277,0.97884,-52.428,#3,0.97832,0.038098,-0.20356,61.365,-0.034589,0.99919,0.020768,11.584,0.20418,-0.013277,0.97884,-52.428
> view matrix models
> #2,0.97325,0.063094,-0.22092,60.577,-0.08436,0.99253,-0.088175,57.825,0.21371,0.10445,0.9713,-86.084,#3,0.97325,0.063094,-0.22092,60.577,-0.08436,0.99253,-0.088175,57.825,0.21371,0.10445,0.9713,-86.084
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.97325,0.063094,-0.22092,63.761,-0.08436,0.99253,-0.088175,52.757,0.21371,0.10445,0.9713,-79.904,#3,0.97325,0.063094,-0.22092,63.761,-0.08436,0.99253,-0.088175,52.757,0.21371,0.10445,0.9713,-79.904
> ~clashes
> clashes #3
33807 clashes
> hide #!1 models
> clashes #3
33807 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,37.616,-0.08436,0.99253,-0.088175,39.015,0.21371,0.10445,0.9713,-89.43,#3,0.97325,0.063094,-0.22092,37.616,-0.08436,0.99253,-0.088175,39.015,0.21371,0.10445,0.9713,-89.43
> clashes #3
35937 clashes
> clashes #4
34165 clashes
> show #!1 models
> clashes #3
35937 clashes
> clashes #3 name Cl3
35937 clashes
> hide #7 models
> hide #6 models
> hide #!1 models
> hide #!2 models
> hide #!3 models
> hide #!4 models
> show bonds #8
Expected ',' or a keyword
> show #8 bonds
> show #!2 models
> hide #!2 models
> show #!2 models
> show #!1 models
> show #!3 models
> show #!4 models
> clashes #3 restrict #1 name Cl3
2006 clashes
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.97325,0.063094,-0.22092,39.751,-0.08436,0.99253,-0.088175,42,0.21371,0.10445,0.9713,-87.743,#3,0.97325,0.063094,-0.22092,39.751,-0.08436,0.99253,-0.088175,42,0.21371,0.10445,0.9713,-87.743
> clashes #3 restrict #1 name Cl3
1755 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,44.71,-0.08436,0.99253,-0.088175,40.491,0.21371,0.10445,0.9713,-85.974,#3,0.97325,0.063094,-0.22092,44.71,-0.08436,0.99253,-0.088175,40.491,0.21371,0.10445,0.9713,-85.974
> clashes #3 restrict #1 name Cl3
1879 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,38.75,-0.08436,0.99253,-0.088175,45.347,0.21371,0.10445,0.9713,-87.302,#3,0.97325,0.063094,-0.22092,38.75,-0.08436,0.99253,-0.088175,45.347,0.21371,0.10445,0.9713,-87.302
> clashes #3 restrict #1 name Cl3
1284 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,37.507,-0.08436,0.99253,-0.088175,46.01,0.21371,0.10445,0.9713,-81.76,#3,0.97325,0.063094,-0.22092,37.507,-0.08436,0.99253,-0.088175,46.01,0.21371,0.10445,0.9713,-81.76
> select up
94448 atoms, 95540 bonds, 13 pseudobonds, 5967 residues, 17 models selected
> select down
94448 atoms, 95540 bonds, 1 pseudobond, 5967 residues, 16 models selected
> select up
94448 atoms, 95540 bonds, 13 pseudobonds, 5967 residues, 17 models selected
> select down
94448 atoms, 95540 bonds, 1 pseudobond, 5967 residues, 16 models selected
> select down
94448 atoms, 95540 bonds, 1 pseudobond, 5967 residues, 16 models selected
> select up
94448 atoms, 95540 bonds, 13 pseudobonds, 5967 residues, 17 models selected
> select down
94448 atoms, 95540 bonds, 1 pseudobond, 5967 residues, 16 models selected
> clashes #3 restrict #1 name Cl3
747 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.544,-0.08436,0.99253,-0.088175,44.777,0.21371,0.10445,0.9713,-73.607,#3,0.97325,0.063094,-0.22092,42.544,-0.08436,0.99253,-0.088175,44.777,0.21371,0.10445,0.9713,-73.607
> view matrix models
> #2,0.97325,0.063094,-0.22092,46.993,-0.08436,0.99253,-0.088175,44.775,0.21371,0.10445,0.9713,-80.958,#3,0.97325,0.063094,-0.22092,46.993,-0.08436,0.99253,-0.088175,44.775,0.21371,0.10445,0.9713,-80.958
> clashes #3 restrict #1 name Cl3
1004 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,44.662,-0.08436,0.99253,-0.088175,45.43,0.21371,0.10445,0.9713,-80.336,#3,0.97325,0.063094,-0.22092,44.662,-0.08436,0.99253,-0.088175,45.43,0.21371,0.10445,0.9713,-80.336
> clashes #3 restrict #1 name Cl3
920 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.543,-0.08436,0.99253,-0.088175,46.004,0.21371,0.10445,0.9713,-80.294,#3,0.97325,0.063094,-0.22092,43.543,-0.08436,0.99253,-0.088175,46.004,0.21371,0.10445,0.9713,-80.294
> clashes #3 restrict #1 name Cl3
807 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.439,-0.08436,0.99253,-0.088175,46.524,0.21371,0.10445,0.9713,-80.207,#3,0.97325,0.063094,-0.22092,42.439,-0.08436,0.99253,-0.088175,46.524,0.21371,0.10445,0.9713,-80.207
> clashes #3 restrict #1 name Cl3
754 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.963,-0.08436,0.99253,-0.088175,47.031,0.21371,0.10445,0.9713,-80.45,#3,0.97325,0.063094,-0.22092,41.963,-0.08436,0.99253,-0.088175,47.031,0.21371,0.10445,0.9713,-80.45
> clashes #3 restrict #1 name Cl3
705 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.195,-0.08436,0.99253,-0.088175,46.628,0.21371,0.10445,0.9713,-79.633,#3,0.97325,0.063094,-0.22092,41.195,-0.08436,0.99253,-0.088175,46.628,0.21371,0.10445,0.9713,-79.633
> clashes #3 restrict #1 name Cl3
716 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.284,-0.08436,0.99253,-0.088175,47.078,0.21371,0.10445,0.9713,-80.67,#3,0.97325,0.063094,-0.22092,42.284,-0.08436,0.99253,-0.088175,47.078,0.21371,0.10445,0.9713,-80.67
> clashes #3 restrict #1 name Cl3
698 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.044,-0.08436,0.99253,-0.088175,47.501,0.21371,0.10445,0.9713,-80.958,#3,0.97325,0.063094,-0.22092,42.044,-0.08436,0.99253,-0.088175,47.501,0.21371,0.10445,0.9713,-80.958
> clashes #3 restrict #1 name Cl3
664 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.219,-0.08436,0.99253,-0.088175,47.844,0.21371,0.10445,0.9713,-81.392,#3,0.97325,0.063094,-0.22092,42.219,-0.08436,0.99253,-0.088175,47.844,0.21371,0.10445,0.9713,-81.392
> clashes #3 restrict #1 name Cl3
617 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.471,-0.08436,0.99253,-0.088175,48.603,0.21371,0.10445,0.9713,-82.279,#3,0.97325,0.063094,-0.22092,42.471,-0.08436,0.99253,-0.088175,48.603,0.21371,0.10445,0.9713,-82.279
> clashes #3 restrict #1 name Cl3
552 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.316,-0.08436,0.99253,-0.088175,49.152,0.21371,0.10445,0.9713,-82.738,#3,0.97325,0.063094,-0.22092,42.316,-0.08436,0.99253,-0.088175,49.152,0.21371,0.10445,0.9713,-82.738
> clashes #3 restrict #1 name Cl3
513 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.677,-0.08436,0.99253,-0.088175,49.32,0.21371,0.10445,0.9713,-83.1,#3,0.97325,0.063094,-0.22092,42.677,-0.08436,0.99253,-0.088175,49.32,0.21371,0.10445,0.9713,-83.1
> clashes #3 restrict #1 name Cl3
484 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.159,-0.08436,0.99253,-0.088175,49.696,0.21371,0.10445,0.9713,-83.734,#3,0.97325,0.063094,-0.22092,43.159,-0.08436,0.99253,-0.088175,49.696,0.21371,0.10445,0.9713,-83.734
> clashes #3 restrict #1 name Cl3
448 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.382,-0.08436,0.99253,-0.088175,50.084,0.21371,0.10445,0.9713,-84.239,#3,0.97325,0.063094,-0.22092,43.382,-0.08436,0.99253,-0.088175,50.084,0.21371,0.10445,0.9713,-84.239
> clashes #3 restrict #1 name Cl3
439 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.785,-0.08436,0.99253,-0.088175,50.424,0.21371,0.10445,0.9713,-84.795,#3,0.97325,0.063094,-0.22092,43.785,-0.08436,0.99253,-0.088175,50.424,0.21371,0.10445,0.9713,-84.795
> clashes #3 restrict #1 name Cl3
425 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.204,-0.08436,0.99253,-0.088175,51.066,0.21371,0.10445,0.9713,-85.113,#3,0.97325,0.063094,-0.22092,43.204,-0.08436,0.99253,-0.088175,51.066,0.21371,0.10445,0.9713,-85.113
> clashes #3 restrict #1 name Cl3
468 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.542,-0.08436,0.99253,-0.088175,50.528,0.21371,0.10445,0.9713,-84.765,#3,0.97325,0.063094,-0.22092,43.542,-0.08436,0.99253,-0.088175,50.528,0.21371,0.10445,0.9713,-84.765
> clashes #3 restrict #1 name Cl3
432 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,44.102,-0.08436,0.99253,-0.088175,49.841,0.21371,0.10445,0.9713,-84.391,#3,0.97325,0.063094,-0.22092,44.102,-0.08436,0.99253,-0.088175,49.841,0.21371,0.10445,0.9713,-84.391
> clashes #3 restrict #1 name Cl3
450 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,44.323,-0.08436,0.99253,-0.088175,50.111,0.21371,0.10445,0.9713,-84.778,#3,0.97325,0.063094,-0.22092,44.323,-0.08436,0.99253,-0.088175,50.111,0.21371,0.10445,0.9713,-84.778
> clashes #3 restrict #1 name Cl3
433 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,44.174,-0.08436,0.99253,-0.088175,50.416,0.21371,0.10445,0.9713,-84.998,#3,0.97325,0.063094,-0.22092,44.174,-0.08436,0.99253,-0.088175,50.416,0.21371,0.10445,0.9713,-84.998
> clashes #3 restrict #1 name Cl3
430 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,44.688,-0.08436,0.99253,-0.088175,50.253,0.21371,0.10445,0.9713,-85.118,#3,0.97325,0.063094,-0.22092,44.688,-0.08436,0.99253,-0.088175,50.253,0.21371,0.10445,0.9713,-85.118
> clashes #3 restrict #1 name Cl3
431 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,45.126,-0.08436,0.99253,-0.088175,50.295,0.21371,0.10445,0.9713,-85.397,#3,0.97325,0.063094,-0.22092,45.126,-0.08436,0.99253,-0.088175,50.295,0.21371,0.10445,0.9713,-85.397
> clashes #3 restrict #1 name Cl3
442 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,44.205,-0.08436,0.99253,-0.088175,50.532,0.21371,0.10445,0.9713,-85.13,#3,0.97325,0.063094,-0.22092,44.205,-0.08436,0.99253,-0.088175,50.532,0.21371,0.10445,0.9713,-85.13
> clashes #3 restrict #1 name Cl3
441 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.735,-0.08436,0.99253,-0.088175,50.603,0.21371,0.10445,0.9713,-84.945,#3,0.97325,0.063094,-0.22092,43.735,-0.08436,0.99253,-0.088175,50.603,0.21371,0.10445,0.9713,-84.945
> clashes #3 restrict #1 name Cl3
437 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,43.411,-0.08436,0.99253,-0.088175,51.412,0.21371,0.10445,0.9713,-83.702,#3,0.97325,0.063094,-0.22092,43.411,-0.08436,0.99253,-0.088175,51.412,0.21371,0.10445,0.9713,-83.702
> clashes #3 restrict #1 name Cl3
313 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.972,-0.08436,0.99253,-0.088175,52.333,0.21371,0.10445,0.9713,-82.663,#3,0.97325,0.063094,-0.22092,42.972,-0.08436,0.99253,-0.088175,52.333,0.21371,0.10445,0.9713,-82.663
> clashes #3 restrict #1 name Cl3
230 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.687,-0.08436,0.99253,-0.088175,53.006,0.21371,0.10445,0.9713,-81.708,#3,0.97325,0.063094,-0.22092,42.687,-0.08436,0.99253,-0.088175,53.006,0.21371,0.10445,0.9713,-81.708
> clashes #3 restrict #1 name Cl3
174 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.472,-0.08436,0.99253,-0.088175,53.404,0.21371,0.10445,0.9713,-81.393,#3,0.97325,0.063094,-0.22092,42.472,-0.08436,0.99253,-0.088175,53.404,0.21371,0.10445,0.9713,-81.393
> clashes #3 restrict #1 name Cl3
149 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.986,-0.08436,0.99253,-0.088175,54.165,0.21371,0.10445,0.9713,-81.182,#3,0.97325,0.063094,-0.22092,41.986,-0.08436,0.99253,-0.088175,54.165,0.21371,0.10445,0.9713,-81.182
> clashes #3 restrict #1 name Cl3
123 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.746,-0.08436,0.99253,-0.088175,54.605,0.21371,0.10445,0.9713,-80.848,#3,0.97325,0.063094,-0.22092,41.746,-0.08436,0.99253,-0.088175,54.605,0.21371,0.10445,0.9713,-80.848
> clashes #3 restrict #1 name Cl3
103 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.655,-0.08436,0.99253,-0.088175,54.875,0.21371,0.10445,0.9713,-80.339,#3,0.97325,0.063094,-0.22092,41.655,-0.08436,0.99253,-0.088175,54.875,0.21371,0.10445,0.9713,-80.339
> clashes #3 restrict #1 name Cl3
97 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.349,-0.08436,0.99253,-0.088175,55.458,0.21371,0.10445,0.9713,-79.829,#3,0.97325,0.063094,-0.22092,41.349,-0.08436,0.99253,-0.088175,55.458,0.21371,0.10445,0.9713,-79.829
> clashes #3 restrict #1 name Cl3
95 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.892,-0.08436,0.99253,-0.088175,56.11,0.21371,0.10445,0.9713,-79.866,#3,0.97325,0.063094,-0.22092,40.892,-0.08436,0.99253,-0.088175,56.11,0.21371,0.10445,0.9713,-79.866
> clashes #3 restrict #1 name Cl3
89 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.69,-0.08436,0.99253,-0.088175,56.478,0.21371,0.10445,0.9713,-79.584,#3,0.97325,0.063094,-0.22092,40.69,-0.08436,0.99253,-0.088175,56.478,0.21371,0.10445,0.9713,-79.584
> clashes #3 restrict #1 name Cl3
88 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.263,-0.08436,0.99253,-0.088175,57.105,0.21371,0.10445,0.9713,-79.554,#3,0.97325,0.063094,-0.22092,40.263,-0.08436,0.99253,-0.088175,57.105,0.21371,0.10445,0.9713,-79.554
> clashes #3 restrict #1 name Cl3
91 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.78,-0.08436,0.99253,-0.088175,56.499,0.21371,0.10445,0.9713,-79.032,#3,0.97325,0.063094,-0.22092,40.78,-0.08436,0.99253,-0.088175,56.499,0.21371,0.10445,0.9713,-79.032
> clashes #3 restrict #1 name Cl3
97 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.94,-0.08436,0.99253,-0.088175,56.259,0.21371,0.10445,0.9713,-79.066,#3,0.97325,0.063094,-0.22092,40.94,-0.08436,0.99253,-0.088175,56.259,0.21371,0.10445,0.9713,-79.066
> clashes #3 restrict #1 name Cl3
106 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.66,-0.08436,0.99253,-0.088175,56.748,0.21371,0.10445,0.9713,-78.759,#3,0.97325,0.063094,-0.22092,40.66,-0.08436,0.99253,-0.088175,56.748,0.21371,0.10445,0.9713,-78.759
> clashes #3 restrict #1 name Cl3
96 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.413,-0.08436,0.99253,-0.088175,57.026,0.21371,0.10445,0.9713,-79.051,#3,0.97325,0.063094,-0.22092,40.413,-0.08436,0.99253,-0.088175,57.026,0.21371,0.10445,0.9713,-79.051
> clashes #3 restrict #1 name Cl3
93 clashes
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_basal_89clash.cxs"
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.819,-0.08436,0.99253,-0.088175,56.177,0.21371,0.10445,0.9713,-79.387,#3,0.97325,0.063094,-0.22092,40.819,-0.08436,0.99253,-0.088175,56.177,0.21371,0.10445,0.9713,-79.387
> select up
94448 atoms, 95540 bonds, 13 pseudobonds, 5967 residues, 17 models selected
> clashes #3 restrict #1 name Cl3
89 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.538,-0.08436,0.99253,-0.088175,55.762,0.21371,0.10445,0.9713,-80.368,#3,0.97325,0.063094,-0.22092,40.538,-0.08436,0.99253,-0.088175,55.762,0.21371,0.10445,0.9713,-80.368
> clashes #3 restrict #1 name Cl3
103 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.433,-0.08436,0.99253,-0.088175,56.611,0.21371,0.10445,0.9713,-79.52,#3,0.97325,0.063094,-0.22092,40.433,-0.08436,0.99253,-0.088175,56.611,0.21371,0.10445,0.9713,-79.52
> clashes #3 restrict #1 name Cl3
96 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.926,-0.08436,0.99253,-0.088175,55.647,0.21371,0.10445,0.9713,-77.706,#3,0.97325,0.063094,-0.22092,42.926,-0.08436,0.99253,-0.088175,55.647,0.21371,0.10445,0.9713,-77.706
> clashes #3 restrict #1 name Cl3
172 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,42.355,-0.08436,0.99253,-0.088175,54.941,0.21371,0.10445,0.9713,-79.173,#3,0.97325,0.063094,-0.22092,42.355,-0.08436,0.99253,-0.088175,54.941,0.21371,0.10445,0.9713,-79.173
> clashes #3 restrict #1 name Cl3
113 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.251,-0.08436,0.99253,-0.088175,55.012,0.21371,0.10445,0.9713,-80.379,#3,0.97325,0.063094,-0.22092,41.251,-0.08436,0.99253,-0.088175,55.012,0.21371,0.10445,0.9713,-80.379
> clashes #3 restrict #1 name Cl3
110 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.826,-0.08436,0.99253,-0.088175,54.68,0.21371,0.10445,0.9713,-81.252,#3,0.97325,0.063094,-0.22092,40.826,-0.08436,0.99253,-0.088175,54.68,0.21371,0.10445,0.9713,-81.252
> clashes #3 restrict #1 name Cl3
126 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.616,-0.08436,0.99253,-0.088175,55.416,0.21371,0.10445,0.9713,-80.662,#3,0.97325,0.063094,-0.22092,40.616,-0.08436,0.99253,-0.088175,55.416,0.21371,0.10445,0.9713,-80.662
> clashes #3 restrict #1 name Cl3
105 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.691,-0.08436,0.99253,-0.088175,53.241,0.21371,0.10445,0.9713,-79.423,#3,0.97325,0.063094,-0.22092,41.691,-0.08436,0.99253,-0.088175,53.241,0.21371,0.10445,0.9713,-79.423
> clashes #3 restrict #1 name Cl3
169 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.439,-0.08436,0.99253,-0.088175,53.437,0.21371,0.10445,0.9713,-80.921,#3,0.97325,0.063094,-0.22092,41.439,-0.08436,0.99253,-0.088175,53.437,0.21371,0.10445,0.9713,-80.921
> clashes #3 restrict #1 name Cl3
164 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.11,-0.08436,0.99253,-0.088175,54.017,0.21371,0.10445,0.9713,-81.835,#3,0.97325,0.063094,-0.22092,41.11,-0.08436,0.99253,-0.088175,54.017,0.21371,0.10445,0.9713,-81.835
> clashes #3 restrict #1 name Cl3
167 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,40.255,-0.08436,0.99253,-0.088175,55.728,0.21371,0.10445,0.9713,-83.564,#3,0.97325,0.063094,-0.22092,40.255,-0.08436,0.99253,-0.088175,55.728,0.21371,0.10445,0.9713,-83.564
> clashes #3 restrict #1 name Cl3
290 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.542,-0.08436,0.99253,-0.088175,52.418,0.21371,0.10445,0.9713,-83.323,#3,0.97325,0.063094,-0.22092,41.542,-0.08436,0.99253,-0.088175,52.418,0.21371,0.10445,0.9713,-83.323
> clashes #3 restrict #1 name Cl3
362 clashes
> view matrix models
> #2,0.97325,0.063094,-0.22092,41.022,-0.08436,0.99253,-0.088175,53.465,0.21371,0.10445,0.9713,-84.355,#3,0.97325,0.063094,-0.22092,41.022,-0.08436,0.99253,-0.088175,53.465,0.21371,0.10445,0.9713,-84.355
> undo
> clashes #3 restrict #1 name Cl3
105 clashes
> clashes #3 restrict #1 name Cl3
126 clashes
> clashes #3 restrict #1 name Cl3
113 clashes
> clashes #3 restrict #1 name Cl3
172 clashes
> clashes #3 restrict #1 name Cl3
172 clashes
> clashes #3 restrict #1 name Cl3
172 clashes
> clashes #3 restrict #1 name Cl3
172 clashes
> clashes #3 restrict #1 name Cl3
105 clashes
> clashes #3 restrict #1 name Cl3
169 clashes
> clashes #3 restrict #1 name Cl3
167 clashes
> clashes #3 restrict #1 name Cl3
169 clashes
> clashes #3 restrict #1 name Cl3
105 clashes
> clashes #3 restrict #1 name Cl3
126 clashes
> clashes #3 restrict #1 name Cl3
105 clashes
> ui mousemode right select
> select clear
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/het_basal_100clash.cxs"
> show #7 models
> hide #8 models
> hide #7 models
> show #8 models
> close
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/active Homo
> absolute R=0/CaMKII_A_C_blank.cxs" format session
No such file/path: /Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/active
Homo absolute R=0/CaMKII_A_C_blank.cxs
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/first run with one
> set/inactive_R close #5
> close #6
> show #3 models
> hide #3 models
> close #3
> color blue, #1/:344-500
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> color blue, #1/:344-500 target c
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> color #1/:344-500 target c, blue
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> color blue #1/:344-500 target c
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> select #1/:344-500 target c
Expected an objects specifier or a keyword
> select #1/:344-500
Expected an objects specifier or a keyword
> hide #!2 models
> hide #!4 models
> show #!2 models
> show #!4 models
> select #1/:344-500 atoms
Expected an objects specifier or a keyword
> select #1/:344- atoms
Expected an objects specifier or a keyword
> select #1/:344 atoms
Expected an objects specifier or a keyword
> select #1/A-L:344 atoms
Expected a keyword
> select #1/A-L:344 atom
Expected a keyword
> select #1/A-L:344- atoms
Expected an objects specifier or a keyword
> select #1/A-L:344- atom
Expected an objects specifier or a keyword
> select #1/A-L:344-end
20279 atoms, 20539 bonds, 10 pseudobonds, 1270 residues, 2 models selected
> color sel blue color
Missing "color" keyword's argument
> color sel blue target c
> color sel skyblue target c
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homoBASAL30.pb"
Line 0 "#3/A:245@CA #2/c:317@CA
", got 0 atoms for spec "#3/A:245@CA", require exactly 1
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homoBASAL30.pb"
Opened Pseudobonds homoBASAL30.pb, 136 bonds
> save /Users/Andrew/Desktop/image12.png supersample 3
> close #3
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homoBASAL30_same.pb"
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/dialog.py", line 162, in _qt_safe
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]) + (""
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 118, in cmd_open
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 193, in provider_open
models, status = collated_open(session, None, [data], data_format,
_add_models,
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 457, in collated_open
return remember_data_format()
File
"/Applications/ChimeraX-1.4.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
models, status = func(*func_args, **func_kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/read_pbonds/__init__.py", line 25, in open
return readpbonds.read_pseudobond_file(session, data, file_name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/read_pbonds/readpbonds.py", line 55, in read_pseudobond_file
b = g.new_pseudobond(a1[0], a2[0])
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 447, in new_pseudobond
pb = f(self._c_pointer, atom1._c_pointer, atom2._c_pointer)
TypeError: Can't form pseudobond to itself
Populating font family aliases took 375 ms. Replace uses of missing font
family ".AppleSystemUIFont" with one that exists to avoid this cost.
TypeError: Can't form pseudobond to itself
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 447, in new_pseudobond
pb = f(self._c_pointer, atom1._c_pointer, atom2._c_pointer)
See log for complete Python traceback.
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homoBASAL30_same.pb"
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/dialog.py", line 162, in _qt_safe
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]) + (""
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 118, in cmd_open
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 193, in provider_open
models, status = collated_open(session, None, [data], data_format,
_add_models,
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 457, in collated_open
return remember_data_format()
File
"/Applications/ChimeraX-1.4.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
models, status = func(*func_args, **func_kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/read_pbonds/__init__.py", line 25, in open
return readpbonds.read_pseudobond_file(session, data, file_name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/read_pbonds/readpbonds.py", line 55, in read_pseudobond_file
b = g.new_pseudobond(a1[0], a2[0])
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 447, in new_pseudobond
pb = f(self._c_pointer, atom1._c_pointer, atom2._c_pointer)
TypeError: Can't form pseudobond to itself
TypeError: Can't form pseudobond to itself
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 447, in new_pseudobond
pb = f(self._c_pointer, atom1._c_pointer, atom2._c_pointer)
See log for complete Python traceback.
> open "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homoBASAL30_same.pb"
Opened Pseudobonds homoBASAL30_same.pb, 128 bonds
Drag select of 6 pseudobonds
> select clear
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homobasal30_same.cxs"
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 896, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 249, in discovery
if hasattr(sm, 'include_state') and not sm.include_state(value):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 543, in include_state
return bool(self.group_map)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 536, in group_map
f = c_function('set_pbgroup_py_instance',
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molc.py", line 31, in c_function
f = getattr(self._c_lib, func_name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 387, in __getattr__
func = self.__getitem__(name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 116, in
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 51, in display
run(session, cmd)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save
saver_info.save(session, path, **provider_kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core_formats/__init__.py", line 84, in save
return cxs_save(session, path, **kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 896, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 249, in discovery
if hasattr(sm, 'include_state') and not sm.include_state(value):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 543, in include_state
return bool(self.group_map)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 536, in group_map
f = c_function('set_pbgroup_py_instance',
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molc.py", line 31, in c_function
f = getattr(self._c_lib, func_name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 387, in __getattr__
func = self.__getitem__(name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
See log for complete Python traceback.
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homoBASAL30Same.cxs"
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 896, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 249, in discovery
if hasattr(sm, 'include_state') and not sm.include_state(value):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 543, in include_state
return bool(self.group_map)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 536, in group_map
f = c_function('set_pbgroup_py_instance',
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molc.py", line 31, in c_function
f = getattr(self._c_lib, func_name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 387, in __getattr__
func = self.__getitem__(name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 116, in
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 51, in display
run(session, cmd)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save
saver_info.save(session, path, **provider_kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core_formats/__init__.py", line 84, in save
return cxs_save(session, path, **kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 896, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 249, in discovery
if hasattr(sm, 'include_state') and not sm.include_state(value):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 543, in include_state
return bool(self.group_map)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 536, in group_map
f = c_function('set_pbgroup_py_instance',
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molc.py", line 31, in c_function
f = getattr(self._c_lib, func_name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 387, in __getattr__
func = self.__getitem__(name)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
AttributeError: dlsym(0x21a5cda60, set_pbgroup_py_instance): symbol not found
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/ctypes/__init__.py",
line 392, in __getitem__
func = self._FuncPtr((name_or_ordinal, self))
See log for complete Python traceback.
> close #3
> save "/Users/Andrew/Nextcloud/CaMKII/modelling crosslinks/2nd
> analyses/homo_model.cxs"
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 896, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 249, in discovery
if hasattr(sm, 'include_state') and not sm.include_state(value):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/attributes.py", line 247, in include_state
self._python_instances = [[inst for inst in inst_func(self.session)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/attributes.py", line 247, in
self._python_instances = [[inst for inst in inst_func(self.session)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/structure.py", line 2481, in
register_class(reg_class, lambda *args, cls=reg_class:
python_instances_of_class(cls),
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 49, in python_instances_of_class
return [x for x in instances if filt(x)]
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 49, in
return [x for x in instances if filt(x)]
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 44, in
filt = lambda x: (not x.group.structure) or x.group.structure.id
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molc.py", line 100, in get_prop
return astype(v.value)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/ctypes_support.py", line 69, in pseudobond_group
return PseudobondGroupData.c_ptr_to_py_inst(p)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 2297, in
args = (ctypes.c_void_p,), ret = ctypes.py_object)(ctypes.c_void_p(int(ptr)))
TypeError: int() argument must be a string, a bytes-like object or a number,
not 'NoneType'
TypeError: int() argument must be a string, a bytes-like object or a number,
not 'NoneType'
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/atomic/molobject.py", line 2297, in
args = (ctypes.c_void_p,), ret = ctypes.py_object)(ctypes.c_void_p(int(ptr)))
See log for complete Python traceback.
===== Log before crash end =====
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
OpenGL version: 4.1 Metal - 76.3
OpenGL renderer: Apple M1 Max
OpenGL vendor: Apple
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 Pro
Model Identifier: MacBookPro18,4
Processor Name: Unknown
Processor Speed: 2.4 GHz
Number of Processors: 1
Total Number of Cores: 10
L2 Cache: 20 MB
Memory: 32 GB
Software:
System Software Overview:
System Version: macOS 12.2.1 (21D62)
Kernel Version: Darwin 21.3.0
Time since boot: 19 days 18:29
Graphics/Displays:
Apple M1 Max:
Chipset Model: Apple M1 Max
Type: GPU
Bus: Built-In
Total Number of Cores: 24
Vendor: Apple (0x106b)
Metal Family: Supported, Metal GPUFamily Apple 7
Displays:
LG HDR 4K:
Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
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-XMAS: 1.1.2
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
et-xmlfile: 1.1.0
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
openpyxl: 3.0.10
openvr: 1.16.802
packaging: 21.0
pandas: 1.4.3
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
QtRangeSlider: 0.1.5
RandomWords: 0.3.0
requests: 2.27.1
scipy: 1.7.3
seaborn: 0.11.2
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
Change History (4)
comment:1 by , 3 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Input/Output |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Pseudobond reader not bulletproof to loop pseudobonds |
comment:2 by , 3 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
comment:3 by , 3 years ago
| Resolution: | can't reproduce |
|---|---|
| Status: | closed → reopened |
comment:4 by , 3 years ago
| Status: | reopened → feedback |
|---|
Andrew, can you reproduce this reliably? If so, can you provide a "recipe"?
--Eric
Note:
See TracTickets
for help on using tickets.
I can't reproduce this just by trying to form a loop pseudobond. Nor can I reproduce it by "following along" the log, because there are perplexing things in the log like:
Where is the end quote? It looks like two commands got jammed together with parts missing.
Also, the "set_pbgroup_py_instance: symbol not found" error has been fixed in the daily build.