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Opened 8 months ago
Closed 8 months ago
#17041 closed defect (duplicate)
Mac multi-display crash
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-14.7.1-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Last time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX.
Fatal Python error: Segmentation fault
Thread 0x0000000315e4b000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000314e3f000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000313e33000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 930 in wait
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000312e27000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000311e1b000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x0000000310e0f000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000030fe03000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000030edf7000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000030ddeb000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000030cddf000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000030bdd3000 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Current thread 0x0000000201978f40 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, chimerax.surface._surface, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.pdb._pdbio, PIL._imagingmath, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, lxml._elementpath, lxml.etree (total: 58)
{"app_name":"ChimeraX","timestamp":"2025-03-07 10:54:37.00 -0500","app_version":"1.9.0","slice_uuid":"17982d98-65bc-3327-8526-577ec996453c","build_version":"1.9.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":1,"is_first_party":0,"bug_type":"309","os_version":"macOS 14.7.1 (23H222)","roots_installed":0,"name":"ChimeraX","incident_id":"AE8C8011-D4B9-479C-9A74-AB4C85F6595E"}
{
"uptime" : 640000,
"procRole" : "Background",
"version" : 2,
"userID" : 502,
"deployVersion" : 210,
"modelCode" : "Mac15,3",
"coalitionID" : 50070,
"osVersion" : {
"train" : "macOS 14.7.1",
"build" : "23H222",
"releaseType" : "User"
},
"captureTime" : "2025-03-07 10:54:30.0933 -0500",
"codeSigningMonitor" : 1,
"incident" : "AE8C8011-D4B9-479C-9A74-AB4C85F6595E",
"pid" : 53447,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2025-03-06 18:37:30.9650 -0500",
"procStartAbsTime" : 15013536063787,
"procExitAbsTime" : 15587389526587,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"7E34A750-72D4-58E8-B830-BC716E241A66","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "C383EE5C-11E8-0E19-E8E9-145B9B432E0C",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRd+D\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkWzg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"wakeTime" : 2,
"sleepWakeUUID" : "2E554574-733F-454F-827E-2E43077EBB13",
"sip" : "enabled",
"vmRegionInfo" : "0x4b39952a7448 is not in any region. Bytes after previous region: 82229651469385 Bytes before following region: 22842428459960\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000001, 0x00004b39952a7448","rawCodes":[1,82710687806536],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00004b39952a7448"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":53447},
"vmregioninfo" : "0x4b39952a7448 is not in any region. Bytes after previous region: 82229651469385 Bytes before following region: 22842428459960\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600020000000 [512.0M] 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" : 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===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 8RUC fromDatabase pdb format mmcif
Summary of feedback from opening 8RUC fetched from pdb
---
notes | Fetching compressed mmCIF 8ruc from http://files.rcsb.org/download/8ruc.cif
Fetching CCD CAP from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/P/CAP/CAP.cif
Fetching CCD KCX from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/X/KCX/KCX.cif
8ruc title:
Activated spinach rubisco complexed with 2-carboxyarabinitol bisphosphate
[more info...]
Chain information for 8ruc #1
---
Chain | Description | UniProt
A C E G | RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE/OXYGENASE | RBL_SPIOL 1-475
I J K L | RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE/OXYGENASE | RBS1_SPIOL 1-123
Non-standard residues in 8ruc #1
---
CAP — 2-carboxyarabinitol-1,5-diphosphate
MG — magnesium ion
8ruc mmCIF Assemblies
---
1| author_and_software_defined_assembly
> select /A:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> select /C:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> select /E:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> select /G:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> select /I:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> select /J:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> select /K:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> select /L:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> select clear
> close session
> open 1RXO fromDatabase pdb format mmcif
Summary of feedback from opening 1RXO fetched from pdb
---
notes | Fetching compressed mmCIF 1rxo from http://files.rcsb.org/download/1rxo.cif
Fetching CCD RUB from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/B/RUB/RUB.cif
1rxo title:
Activated spinach rubisco In complex with its substrate
ribulose-1,5-bisphosphate and calcium [more info...]
Chain information for 1rxo #1
---
Chain | Description | UniProt
B E H L | RIBULOSE BISPHOSPHATE CARBOXYLASE/OXYGENASE | RBL_SPIOL 1-475
C F I S | RIBULOSE BISPHOSPHATE CARBOXYLASE/OXYGENASE | RBS1_SPIOL 1-123
Non-standard residues in 1rxo #1
---
CA — calcium ion
RUB — ribulose-1,5-diphosphate
1rxo mmCIF Assemblies
---
1| author_and_software_defined_assembly
> close session
> open 8RUC format mmcif fromDatabase pdb
8ruc title:
Activated spinach rubisco complexed with 2-carboxyarabinitol bisphosphate
[more info...]
Chain information for 8ruc #1
---
Chain | Description | UniProt
A C E G | RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE/OXYGENASE | RBL_SPIOL 1-475
I J K L | RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE/OXYGENASE | RBS1_SPIOL 1-123
Non-standard residues in 8ruc #1
---
CAP — 2-carboxyarabinitol-1,5-diphosphate
MG — magnesium ion
8ruc mmCIF Assemblies
---
1| author_and_software_defined_assembly
> select /A:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> select /C:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> select /E:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> select /G:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> ui tool show "Color Actions"
> color sel plum
> select /L:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> color sel light blue
> select /I:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> color sel light sky blue
> color sel light blue
> color sel sky blue
> color sel light steel blue
> color sel dark sea green
> select /J:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> color sel dark sea green
> select /K:1-123
1033 atoms, 1068 bonds, 123 residues, 1 model selected
> color sel dark sea green
> color sel bychain
> select clear
> color bychain
> color bypolymer
> select /G:9-475
3657 atoms, 3747 bonds, 467 residues, 1 model selected
> color sel lavender
> color sel peach puff
> color sel navajo white
> color sel peach puff
> color sel lavender
> color sel steel blue
> color sel cornflower blue
> color sel light steel blue
> color sel light sky blue
> color sel sky blue
> color sel cornflower blue
> ui tool show "Basic Actions"
> select /A
3993 atoms, 3767 bonds, 6 pseudobonds, 783 residues, 2 models selected
> select /C
3976 atoms, 3767 bonds, 6 pseudobonds, 766 residues, 2 models selected
> select /A
3993 atoms, 3767 bonds, 6 pseudobonds, 783 residues, 2 models selected
> color sel light steel blue
> select /E
3959 atoms, 3767 bonds, 6 pseudobonds, 749 residues, 2 models selected
> color sel light steel blue
> select /E
3959 atoms, 3767 bonds, 6 pseudobonds, 749 residues, 2 models selected
> select /E
3959 atoms, 3767 bonds, 6 pseudobonds, 749 residues, 2 models selected
> select /E
3959 atoms, 3767 bonds, 6 pseudobonds, 749 residues, 2 models selected
> select /G
3987 atoms, 3767 bonds, 6 pseudobonds, 777 residues, 2 models selected
> select /A
3993 atoms, 3767 bonds, 6 pseudobonds, 783 residues, 2 models selected
> select /C
3976 atoms, 3767 bonds, 6 pseudobonds, 766 residues, 2 models selected
> color sel light steel blue
> select /I
1117 atoms, 1068 bonds, 207 residues, 1 model selected
> select /J
1111 atoms, 1068 bonds, 201 residues, 1 model selected
> select /K
1110 atoms, 1068 bonds, 200 residues, 1 model selected
> select /L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> color sel dark sea green
> color sel forest green
> color sel green
> color sel dark sea green
> select /L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> select /L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> select /K
1110 atoms, 1068 bonds, 200 residues, 1 model selected
> color sel light green
> color sel dark sea green
> select /K
1110 atoms, 1068 bonds, 200 residues, 1 model selected
> select /K
1110 atoms, 1068 bonds, 200 residues, 1 model selected
> select /L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> select /J
1111 atoms, 1068 bonds, 201 residues, 1 model selected
> color sel light green
> color sel dark sea green
> select /I
1117 atoms, 1068 bonds, 207 residues, 1 model selected
> color sel dark sea green
> select /L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> color sel medium sea green
> select clear
> set bgColor white
> lighting shadows false
> graphics silhouettes true
> lighting shadows true
> lighting shadows false
> lighting shadows true
> lighting simple
> lighting soft
> lighting full
> lighting shadows false
> lighting shadows true
> lighting full
> lighting simple
> lighting soft
> lighting full
> graphics silhouettes false
> graphics silhouettes true
> select /I
1117 atoms, 1068 bonds, 207 residues, 1 model selected
> select /L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> color sel teal
> color sel yellow green
> color sel plum
> color sel forest green
> select clear
> select /L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> color sel lime green
> color sel lawn green
> color sel dark cyan
> color sel steel blue
> color sel medium aquamarine
> color sel sea green
> select clear
> save "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC complex.cxs"
> select clear
> lighting full
> lighting soft
> lighting full
> lighting shadows false
> lighting shadows true
> graphics silhouettes false
> graphics silhouettes true
> select ::name="HOH"
1520 atoms, 1520 residues, 1 model selected
> hide sel atoms
> save "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC complex.cxs"
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/jefflawton/Desktop/movie1.mp4
Movie saved to /Users/jefflawton/Desktop/movie1.mp4
> hide sel atoms
> select clear
> hide atoms
> select ::name="CAP"
84 atoms, 80 bonds, 4 residues, 1 model selected
> show sel atoms
> select clear
Drag select of 21 atoms, 20 bonds
> select clear
Drag select of 21 atoms, 20 bonds
> hide sel atoms
Drag select of 21 atoms, 20 bonds
> hide sel atoms
Drag select of 21 atoms, 20 bonds
> hide sel atoms
Drag select of 21 atoms, 20 bonds
> view sel
> style sel ball
Changed 21 atom styles
> color sel byelement
> select clear
Drag select of 21 atoms, 20 bonds
> select sel : show sel atoms
> ui mousemode right zoom
> style sel stick
Changed 180 atom styles
> color (#!1 & sel) byelement
> select /G :175
9 atoms, 8 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :173
7 atoms, 6 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :298
10 atoms, 10 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :327
10 atoms, 10 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :402
11 atoms, 11 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :401
9 atoms, 8 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :377
7 atoms, 6 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :329
4 atoms, 3 bonds, 1 residue, 1 model selected
> hide sel atoms
> ui tool show "Side View"
> select /G :379
6 atoms, 5 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :381
4 atoms, 3 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :335
8 atoms, 7 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :294
10 atoms, 10 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :380
4 atoms, 3 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :405
4 atoms, 3 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :404
4 atoms, 3 bonds, 1 residue, 1 model selected
> hide sel atoms
> select /G :403
4 atoms, 3 bonds, 1 residue, 1 model selected
> hide sel atoms
> select ::name="HOH"
1520 atoms, 1520 residues, 1 model selected
> hide sel atoms
> select /G:476@MG
1 atom, 1 residue, 1 model selected
> style sel sphere
Changed 1 atom style
> select clear
> select /G:477@O6
1 atom, 1 residue, 1 model selected
> select add /G:477@C
2 atoms, 1 residue, 1 model selected
> select add /G:477@O7
3 atoms, 1 residue, 1 model selected
> select /G:177@NZ
1 atom, 1 residue, 1 model selected
> select add /G:477@O6
2 atoms, 2 residues, 1 model selected
> ui tool show Distances
> distance /G:177@NZ /G:477@O6
Distance between /G LYS 177 NZ and CAP 477 O6: 2.735Å
> distance style radius 0.01
> distance style radius 0.05
> select clear
> select add /G:334@NZ
1 atom, 1 residue, 1 model selected
Exactly two atoms must be selected!
> select add /G:477@O7
2 atoms, 2 residues, 1 model selected
> distance /G:334@NZ /G:477@O7
Distance between /G LYS 334 NZ and CAP 477 O7: 2.968Å
> select add /G:477@O3P
3 atoms, 2 residues, 1 model selected
> select clear
> select add /G:477@O3P
1 atom, 1 residue, 1 model selected
> select add /G:334@NZ
2 atoms, 2 residues, 1 model selected
> distance /G:477@O3P /G:334@NZ
Distance between /G CAP 477 O3P and LYS 334 NZ: 2.917Å
> select clear
> select /G:295@NH2
1 atom, 1 residue, 1 model selected
> select add /G:477@O4P
2 atoms, 2 residues, 1 model selected
> distance /G:295@NH2 /G:477@O4P
Distance between /G ARG 295 NH2 and CAP 477 O4P: 3.026Å
> hide #2.1 models
> ~distance /G:477@O3P /G:334@NZ
> ~distance /G:295@NH2 /G:477@O4P
> select clear
> select /G :295
11 atoms, 10 bonds, 1 residue, 1 model selected
> hide sel atoms
> save "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC active site.cxs"
> distance style radius 0.05
> save "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC active site.cxs"
> save /Users/jefflawton/Desktop/image1.png supersample 3
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/jefflawton/Desktop/movie1.mp4
Movie saved to /Users/jefflawton/Desktop/movie1.mp4
> select /G:477@C3
1 atom, 1 residue, 1 model selected
> cofr sel
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/jefflawton/Desktop/movie2.mp4
Movie saved to /Users/jefflawton/Desktop/movie2.mp4
> select clear
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/jefflawton/Desktop/movie3.mp4
Movie saved to /Users/jefflawton/Desktop/movie3.mp4
> save "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC active site.cxs"
> close session
> open /Users/jefflawton/Downloads/8ruc.pdb1
8ruc.pdb1 title:
Activated spinach rubisco complexed with 2-carboxyarabinitol bisphosphate
[more info...]
Chain information for 8ruc.pdb1
---
Chain | Description
1.1/A 1.1/C 1.1/E 1.1/G | No description available
1.2/A 1.2/C 1.2/E 1.2/G | No description available
1.1/I 1.2/I 1.1/J 1.2/J 1.1/K 1.2/K 1.1/L 1.2/L | No description available
> select ::name="HOH"
3040 atoms, 3040 residues, 2 models selected
> hide sel atoms
> color sel bychain
> color sel byhetero
> color sel bychain
> color sel bypolymer
> color sel bychain
> ui tool show "Basic Actions"
> select #1.1/A
3993 atoms, 3767 bonds, 6 pseudobonds, 783 residues, 2 models selected
> select #1.1/C
3976 atoms, 3767 bonds, 6 pseudobonds, 766 residues, 2 models selected
> select #1.1/A
3993 atoms, 3767 bonds, 6 pseudobonds, 783 residues, 2 models selected
> select #1.1/C
3976 atoms, 3767 bonds, 6 pseudobonds, 766 residues, 2 models selected
> ui tool show "Color Actions"
> color sel slate blue
> color sel light slate gray
> color sel cadet blue
> color sel cornflower blue
> color sel medium aquamarine
> color sel dark cyan
> color sel light sky blue
> select #1.1/C
3976 atoms, 3767 bonds, 6 pseudobonds, 766 residues, 2 models selected
> select #1.1/A
3993 atoms, 3767 bonds, 6 pseudobonds, 783 residues, 2 models selected
> color sel sky blue
> color sel light sky blue
> select #1.1/E
3959 atoms, 3767 bonds, 6 pseudobonds, 749 residues, 2 models selected
> color sel light sky blue
> select #1.1/G
3987 atoms, 3767 bonds, 6 pseudobonds, 777 residues, 2 models selected
> color sel light sky blue
> select #1.2/A
3993 atoms, 3767 bonds, 783 residues, 1 model selected
> color sel light steel blue
> select #1.2/C
3976 atoms, 3767 bonds, 766 residues, 1 model selected
> color sel light steel blue
> select #1.2/E
3959 atoms, 3767 bonds, 749 residues, 1 model selected
> color sel light steel blue
> select #1.2/G
3987 atoms, 3767 bonds, 777 residues, 1 model selected
> color sel light steel blue
> select #1.1/C
3976 atoms, 3767 bonds, 6 pseudobonds, 766 residues, 2 models selected
> select #1.1/I
1117 atoms, 1068 bonds, 207 residues, 1 model selected
> color sel light pink
> color sel plum
> color sel lavender
> color sel plum
> color sel thistle
> color sel plum
> color sel pale violet red
> color sel plum
> color sel medium orchid
> color sel plum
> color sel light salmon
> color sel pink
> color sel plum
> select #1.1/J
1111 atoms, 1068 bonds, 201 residues, 1 model selected
> color sel pink
> select #1.1/J
1111 atoms, 1068 bonds, 201 residues, 1 model selected
> select #1.1/J
1111 atoms, 1068 bonds, 201 residues, 1 model selected
> select #1.1/J
1111 atoms, 1068 bonds, 201 residues, 1 model selected
> select #1.1/K
1110 atoms, 1068 bonds, 200 residues, 1 model selected
> color sel plum
> select #1.1/L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> color sel pink
> select #1.2/I
1117 atoms, 1068 bonds, 207 residues, 1 model selected
> color sel plum
> select #1.2/J
1111 atoms, 1068 bonds, 201 residues, 1 model selected
> color sel pink
> select #1.2/K
1110 atoms, 1068 bonds, 200 residues, 1 model selected
> color sel pink
> color sel violet
> color sel thistle
> color sel light coral
> color sel lavender
> color sel violet
> color sel plum
> color sel light pink
> color sel light green
> color sel dark sea green
> color sel light green
> select #1.2/L
1115 atoms, 1068 bonds, 205 residues, 1 model selected
> color sel dark sea green
> color sel olive drab
> color sel sea green
> color sel dark sea green
> color sel medium sea green
> color sel sea green
> color sel pale green
> color sel dark sea green
> color sel light green
> color sel pale green
> color sel light green
> color sel dark sea green
> color sel medium sea green
> select /K
2220 atoms, 2136 bonds, 400 residues, 2 models selected
> select /J /K /L
6672 atoms, 6408 bonds, 1212 residues, 2 models selected
> color sel dark sea green
> select /I
2234 atoms, 2136 bonds, 414 residues, 2 models selected
> color sel medium sea green
> color sel plum
> color sel lavender
> color sel plum
> color sel light cyan
> color sel honeydew
> color sel yellow green
> color sel green yellow
> color sel light goldenrod yellow
> color sel peach puff
> color sel sea green
> select /I /K
4454 atoms, 4272 bonds, 814 residues, 2 models selected
> color sel sea green
> select clear
> lighting shadows false
> lighting shadows true
> graphics silhouettes false
> graphics silhouettes true
> lighting simple
> lighting soft
> lighting full
> save "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC complex.cxs"
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/jefflawton/Desktop/movie1.mp4
Movie saved to /Users/jefflawton/Desktop/movie1.mp4
> close session
> open "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC active site.cxs" format session
opened ChimeraX session
> select :344
16 atoms, 12 bonds, 4 residues, 1 model selected
> select /G :344
4 atoms, 3 bonds, 1 residue, 1 model selected
> show sel atoms
> hide sel atoms
> show sel atoms
> close session
> open "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC active site.cxs" format session
opened ChimeraX session
> select /G :476
1 atom, 1 residue, 1 model selected
> select /G :344
4 atoms, 3 bonds, 1 residue, 1 model selected
> select /G :334
9 atoms, 8 bonds, 1 residue, 1 model selected
> label sel text "{0.name} {0.number}{0.insertion_code}"
> select /G :177
9 atoms, 8 bonds, 1 residue, 1 model selected
> label sel text "{0.name} {0.number}{0.insertion_code}"
> select /G :203
8 atoms, 7 bonds, 1 residue, 1 model selected
> label sel text "{0.name} {0.number}{0.insertion_code}"
> select /G :201
12 atoms, 11 bonds, 1 residue, 1 model selected
> label sel atoms text "Lys-Carb 201"
> undo
> select /G :201
12 atoms, 11 bonds, 1 residue, 1 model selected
> ~label sel residues
> label sel atoms text ""
> select /G:201@CX
1 atom, 1 residue, 1 model selected
> label sel text "Carboxamide 201"
> select /G :204
9 atoms, 8 bonds, 1 residue, 1 model selected
> label sel text "{0.name} {0.number}{0.insertion_code}"
> select /G:477@C
1 atom, 1 residue, 1 model selected
> label sel text CO2
> label sel text "{0.name} {0.number}{0.insertion_code}"
> label sel text ""
> select /G:334@NZ
1 atom, 1 residue, 1 model selected
> label sel text "{0.name} {0.number}{0.insertion_code}"
> label sel text "Lys 334"
> label sel text ""
> label sel text "{0.name} {0.number}{0.insertion_code}"
> label height 0.7
> hide #1.2 models
> show #1.2 models
> select add #2
1 atom, 2 pseudobonds, 1 residue, 3 models selected
> select subtract #2
1 atom, 1 residue, 1 model selected
> show #2.1 models
> save "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC active site (labels).cxs"
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/jefflawton/Desktop/movie1.mp4
Movie saved to /Users/jefflawton/Desktop/movie1.mp4
> hide #1.2 models
> save /Users/jefflawton/Desktop/image1.png supersample 3
> close session
> open "/Users/jefflawton/Dropbox/EASTERN/321 Biochemistry II/Lecture
> Notes/Chapter 20 Extras/8RUC active site (labels).cxs" format session
opened ChimeraX session
> hide #2.1 models
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/jefflawton/Desktop/movie1.mp4
Movie saved to /Users/jefflawton/Desktop/movie1.mp4
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 88.1
OpenGL renderer: Apple M3
OpenGL vendor: Apple
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac15,3
Model Number: MTL73LL/A
Chip: Apple M3
Total Number of Cores: 8 (4 performance and 4 efficiency)
Memory: 8 GB
System Firmware Version: 11881.41.5
OS Loader Version: 10151.140.19.700.2
Software:
System Software Overview:
System Version: macOS 14.7.1 (23H222)
Kernel Version: Darwin 23.6.0
Time since boot: 18 days, 3 hours, 16 minutes
Graphics/Displays:
Apple M3:
Chipset Model: Apple M3
Type: GPU
Bus: Built-In
Total Number of Cores: 10
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: No
Connection Type: Internal
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.6
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-ModelPanel: 1.5
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.18.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
prompt_toolkit: 3.0.48
psutil: 6.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.0.2
sphinx-autodoc-typehints: 2.2.3
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
Change History (2)
comment:1 by , 8 months ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Mac multi-display crash |
comment:2 by , 8 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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