![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 2 years ago
Closed 2 years ago
#8890 closed defect (can't reproduce)
Crash after saving movie
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Input/Output | Version: | |
| Keywords: | Cc: | ||
| 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: 1.6rc202304202331 (2023-04-20 23:31:10 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
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{
"uptime" : 22000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "MacBookAir8,2",
"coalitionID" : 1737,
"osVersion" : {
"train" : "macOS 13.0.1",
"build" : "22A400",
"releaseType" : "User"
},
"captureTime" : "2023-04-24 14:30:15.7193 -0400",
"incident" : "66A93111-5A8C-43B6-B796-1443301B80CB",
"pid" : 2733,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2023-04-23 13:10:27.6320 -0400",
"procStartAbsTime" : 8304977362898,
"procExitAbsTime" : 22603160586236,
"procName" : "ChimeraX",
"procPath" : "\/private\/var\/folders\/*\/ChimeraX-1.5.app\/Contents\/MacOS\/ChimeraX",
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "9A35D7C2-E5C8-B0AA-6B77-B67DB413D8D9",
"wakeTime" : 82,
"bridgeVersion" : {"build":"20P420","train":"7.0"},
"sleepWakeUUID" : "73294720-AA6E-48C9-9237-AED45071726B",
"sip" : "enabled",
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"ktriageinfo" : "VM - Object has no pager\nVM - Filesystem pagein returned an error in vnode_pagein\nVM - Page has error bit set\nVM - Filesystem pagein returned an error in vnode_pagein\nVM - Page has error bit set\n",
"vmregioninfo" : "0x10b17af30 is in 0x10afa7000-0x10b210000; bytes after start: 1916720 bytes before end: 610511\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n shared memory 10af98000-10afa7000 [ 60K] r--\/r-- SM=SHM \n---> mapped file 10afa7000-10b210000 [ 2468K] r-x\/rwx SM=COW ...t_id=342d9b09\n mapped file 10b210000-10b24a000 [ 232K] rw-\/rwx SM=COW ...t_id=36343009",
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]
}
===== Log before crash start =====
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.5 (2022-11-24)
© 2016-2022 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> ui tool show AlphaFold
> alphafold predict
> RHIFLIRHSQYHVDGSLEKDRTLTPLGREQAELTGLRLASLGLKFNKIVHSSMTRAIETTDIISRHLPGVCKVSTDLLREGCRALQFPPEGWLRLSLNNGSITHLVIRPNGRVALRTLGDTGFMPPDKITRSAPIEPDPPVSHWKPEAVQYYEDGARIEAAFRNYIHRADARQEEDSYEIFICHANVIRYIV
Please cite ColabFold: Making protein folding accessible to all. Nature
Methods (2022) if you use these predictions.
Running AlphaFold prediction
> open 1ujc
1ujc title:
Structure of the protein histidine phosphatase SixA complexed with tungstate
[more info...]
Chain information for 1ujc #1
---
Chain | Description | UniProt
A | Phosphohistidine phosphatase sixA | SIXA_ECOLI
Non-standard residues in 1ujc #1
---
CA — calcium ion
WO4 — tungstate(VI)ion
> open 2hur
2hur title:
Escherichia coli nucleoside diphosphate kinase [more info...]
Chain information for 2hur #2
---
Chain | Description | UniProt
A B C D E F | NUCLEOSIDE DIPHOSPHATE KINASE | NDK_ECOLI
Non-standard residues in 2hur #2
---
SO4 — sulfate ion
2hur mmCIF Assemblies
---
1| author_defined_assembly
2| author_defined_assembly
3| software_defined_assembly
4| software_defined_assembly
5| software_defined_assembly
> style stick
Changed 8644 atom styles
> style stick
Changed 8644 atom styles
> rainbow
> hide #!1 models
> show #!1 models
> show cartoons
> hide atoms
> color #2 #ff2907ff
> color #2 #9f9cffff
> color #1 #2ddb5bff
> color #1 #28db42ff
> mmaker
> matchmaker
Missing or invalid "matchAtoms" argument: empty atom specifier
> mmaker 1ujc 2hur
> matchmaker 1ujc 2hur
Missing or invalid "matchAtoms" argument: invalid atoms specifier
> mmaker 1ujc
> matchmaker 1ujc
Missing or invalid "matchAtoms" argument: invalid atoms specifier
> ui tool show Matchmaker
> matchmaker #2 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 1ujc, chain A (#1) with 2hur, chain D (#2), sequence alignment
score = 42.4
RMSD between 6 pruned atom pairs is 1.289 angstroms; (across all 69 pairs:
15.519)
> select #2/A:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> select #2/B:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> select #2/C:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> select #2/D:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> select add #2
7239 atoms, 6642 bonds, 1575 residues, 1 model selected
> select subtract #2
Nothing selected
> select add #2
7239 atoms, 6642 bonds, 1575 residues, 1 model selected
> select subtract #2
Nothing selected
AlphaFold prediction finished
Results in /Users/akash/Downloads/ChimeraX/AlphaFold/prediction_3
> open /Users/akash/Downloads/ChimeraX/AlphaFold/prediction_3/best_model.pdb
Chain information for best_model.pdb #3
---
Chain | Description
A | No description available
> hide #3 models
> select #2/A:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> hide sel atoms
> select #2/A:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> select #2/A:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> hide sel cartoons
> select #2/B:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> hide sel cartoons
> select #2/C:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> hide sel cartoons
> select #2/D:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> select #2/E:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> hide sel cartoons
> select #2/F:2-143
1082 atoms, 1103 bonds, 142 residues, 1 model selected
> hide sel cartoons
> hide #2 models
> show #2 models
> hide #2 models
> show #3 models
> ui tool show Matchmaker
> matchmaker #3 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 1ujc, chain A (#1) with best_model.pdb, chain A (#3), sequence
alignment score = 146.8
RMSD between 61 pruned atom pairs is 0.852 angstroms; (across all 127 pairs:
12.283)
> show #2 models
> lighting simple
> graphics silhouettes true
> graphics silhouettes false
> lighting shadows true
> ui tool show "Side View"
> view orient
> hide #3 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #3 models
> hide #3 models
> show #3 models
> hide #3 models
> show #3 models
> hide #3 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> open 3mxo
Summary of feedback from opening 3mxo fetched from pdb
---
notes | Fetching compressed mmCIF 3mxo from
http://files.rcsb.org/download/3mxo.cif
Fetching CCD EDO from http://ligand-expo.rcsb.org/reports/E/EDO/EDO.cif
Fetching CCD PG4 from http://ligand-expo.rcsb.org/reports/P/PG4/PG4.cif
Fetching CCD CL from http://ligand-expo.rcsb.org/reports/C/CL/CL.cif
Fetching CCD PGE from http://ligand-expo.rcsb.org/reports/P/PGE/PGE.cif
Fetching CCD PEG from http://ligand-expo.rcsb.org/reports/P/PEG/PEG.cif
3mxo title:
Crystal structure oh human phosphoglycerate mutase family member 5 (PGAM5)
[more info...]
Chain information for 3mxo #4
---
Chain | Description | UniProt
A B | Serine/threonine-protein phosphatase PGAM5, mitochondrial | PGAM5_HUMAN
Non-standard residues in 3mxo #4
---
CL — chloride ion
EDO — 1,2-ethanediol (ethylene glycol)
PEG — di(hydroxyethyl)ether
PG4 — tetraethylene glycol
PGE — triethylene glycol
3mxo mmCIF Assemblies
---
1| author_defined_assembly
2| software_defined_assembly
> hide #!1,4 atoms
> ui tool show Matchmaker
> matchmaker #!4 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 1ujc, chain A (#1) with 3mxo, chain B (#4), sequence alignment
score = 214.1
RMSD between 94 pruned atom pairs is 0.950 angstroms; (across all 152 pairs:
7.474)
> select #4/A:88-289
1500 atoms, 1530 bonds, 1 pseudobond, 188 residues, 2 models selected
> hide sel cartoons
> show #3 models
> color #4 #eeaf73ff
> color #4 #ee9045ff
> color #4 #ee614dff
> color #4 #ee4fe0ff
> color #4 #ecee30ff
> color #4 #ee9e1aff
> hide #!4 models
> show #2 models
> hide #2 models
> show #!4 models
Populating font family aliases took 467 ms. Replace uses of missing font
family "Consolas" with one that exists to avoid this cost.
> alphafold predict
> MAFRQALQLAACGLAGGSAAVLFSAVAVGKPRAGGDAEPRPAEPPAWAGGARPGPGVWDPNWDRREPLSLINVRKRLDHYKAKATRHIFLIRHSQYHVDGSLEKDRTLTPLGREQAELTGLRLASLGLKFNKIVHSSMTRAIETTDIISRHLPGVCKVSTDLLREGAPIEPDPPVSHWKPEAVQYYEDGARIEAAFRNYIHRADARQEEDSYEIFICHANVIRYIVCRALQFPPEGWLRLSLNNGSITHLVIRPNGRVALRTLGDTGFMPPDKITRS
Running AlphaFold prediction
> hide #!1 models
> hide #3 models
> show #3 models
> hide #!4 models
> hide #3 models
> show #!4 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
AlphaFold prediction finished
Results in /Users/akash/Downloads/ChimeraX/AlphaFold/prediction_4
> open /Users/akash/Downloads/ChimeraX/AlphaFold/prediction_4/best_model.pdb
Chain information for best_model.pdb #5
---
Chain | Description
A | No description available
> ui tool show Matchmaker
> matchmaker #5 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 1ujc, chain A (#1) with best_model.pdb, chain A (#5), sequence
alignment score = 194.4
RMSD between 94 pruned atom pairs is 0.918 angstroms; (across all 153 pairs:
8.270)
> show #!1 models
> hide #!4 models
> hide #5 models
> select his 8
Expected an objects specifier or a keyword
> select 1ujc, his8
Expected an objects specifier or a keyword
> select ::name="HIS"
630 atoms, 630 bonds, 63 residues, 5 models selected
> show sel & #!1 atoms
> rainbow sel & #!1
> show #!4 models
> hide #!1 models
> show sel & #!4 atoms
> show #!1 models
> show #5 models
> hide #!1 models
> hide #!4 models
> nucleotides sel & #5 atoms
> style nucleic & sel & #5 stick
Changed 0 atom styles
> show sel & #5 atoms
> rainbow sel & #5
> show #!4 models
> show #!1 models
> hide #!4 models
> hide #!1 models
> show #!1 models
> hide #5 models
> show #5 models
> show #!4 models
> hide #!1 models
> hide #!4 models
> show #!1 models
> hide #!1 models
> show #!4 models
> hide #!4 models
> show #!4 models
> color sel & #5#!4 bychain
> select
> ::name="CA"::name="CL"::name="EDO"::name="HOH"::name="PEG"::name="PG4"::name="PGE"::name="SO4"::name="WO4"
1386 atoms, 100 bonds, 5 pseudobonds, 1286 residues, 4 models selected
> select #1/A
1405 atoms, 1190 bonds, 7 pseudobonds, 392 residues, 2 models selected
> show #3 models
> hide #3,5#!4 atoms
> color #3,5#!4 byhetero
> show #3,5#!4 surfaces
> show #!3-5 surfaces
> alphafold predict
> VESGEEELASKLDHYKAKATRHIFLIRHSQYHVDGSLEKDRTLTPLGREQAELTGLRLASLGLKFNKIVHSSMTRAIETTDIISRHLPGVCKVSTDLLREGAPIEPDPPVSHWKPEAVQYYEDGARIEAAFRNYIHRADARQEEDSYEIFICHANVIRYIVCRALQFPPEGWLRLSLNNGSITHLVIRPNGRVALRTLGDTGFMPPDKITRS
Running AlphaFold prediction
> hide #!3-5 surfaces
> hide #!4 models
> hide #!3 models
AlphaFold prediction finished
Results in /Users/akash/Downloads/ChimeraX/AlphaFold/prediction_5
> open /Users/akash/Downloads/ChimeraX/AlphaFold/prediction_5/best_model.pdb
Chain information for best_model.pdb #6
---
Chain | Description
A | No description available
> select subtract #1
Nothing selected
> hide #!5 models
> show #!5 models
> ui tool show Matchmaker
> matchmaker #6 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 1ujc, chain A (#1) with best_model.pdb, chain A (#6), sequence
alignment score = 194.4
RMSD between 94 pruned atom pairs is 0.915 angstroms; (across all 153 pairs:
8.313)
> show #!4 models
> hide #!5 models
> show #!5 models
> hide #6 models
> show #6 models
> hide #!5 models
> show #!1 models
> show #!5 models
> hide #6 models
> hide #!4 models
> show #!1,5 surfaces
> hide #!1,5 surfaces
> hide #!1 models
> show #!5 surfaces
> show #!4 models
> hide #!4-5 surfaces
> hide #!4 models
> hide #!5 models
> show #2 models
> show #!1 models
> hide #2 models
> show #!5 models
> turn y 1 360
> set bgColor white
> movie record
> turn y 1 360
> wait
> movie encode
Movie saved to /Users/akash/Desktop/movie.mp4
> hide #!5 models
> show #!4 models
> hide #!1 models
> rainbow #!4
> show #!4 cartoons
> select #4/B:88-289
1514 atoms, 1544 bonds, 1 pseudobond, 191 residues, 2 models selected
> show #!1 models
> select #4/B:88-289
1514 atoms, 1544 bonds, 1 pseudobond, 191 residues, 2 models selected
> select #4/B:88-289
1514 atoms, 1544 bonds, 1 pseudobond, 191 residues, 2 models selected
> select #4/B:88-289
1514 atoms, 1544 bonds, 1 pseudobond, 191 residues, 2 models selected
> select #4/A:88-289
1500 atoms, 1530 bonds, 1 pseudobond, 188 residues, 2 models selected
> hide sel cartoons
> hide #!4 models
> show #!4 models
> hide #!1 models
> color (#!4 & sel) byhetero
> color (#!4 & sel) #cdffd6ff
> color (#!4 & sel) #cffff0ff
> color (#!4 & sel) #b6daffff
> color (#!4 & sel) #7990ffff
> color (#!4 & sel) #667bffff
> color (#!4 & sel) #6174ffff
> color (#!4 & sel) #5e73ffff
> color (#!4 & sel) #516affff
> color (#!4 & sel) #4a63ffff
> color (#!4 & sel) #4963ffff
> color (#!4 & sel) #4962ffff
> color (#!4 & sel) #4a62ffff
> color (#!4 & sel) #5060ffff
> color (#!4 & sel) #585bffff
> color (#!4 & sel) #5d5bffff
> color (#!4 & sel) #5e5cffff
> select add #4
3413 atoms, 3146 bonds, 2 pseudobonds, 706 residues, 3 models selected
> color (#!4 & sel) byhetero
> color (#!4 & sel) blue
> color (#!4 & sel) light sea green
> color (#!4 & sel) cornflower blue
> select subtract #4
2 models selected
> show #!1 models
> movie record
> turn y 1 360
> wait
> movie encode
Movie saved to /Users/akash/Desktop/movie.mp4
> hide #!1 models
> show #!3 models
> hide #!3 models
> show #!5 models
> hide #!4 models
> show #6 models
> hide #!5 models
> show #!1 models
> movie record
> turn y 1 360
> wait
> movie encode
Movie saved to /Users/akash/Desktop/movie.mp4
> show #!5 models
> hide #6 models
> movie record
> turn y 1 360
> wait
> movie encode
Movie saved to /Users/akash/Desktop/movie.mp4
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.6rc202304202331 (2023-04-20)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 INTEL-20.2.44
OpenGL renderer: Intel(R) UHD Graphics 617
OpenGL vendor: Intel Inc.
Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Air
Model Identifier: MacBookAir8,2
Processor Name: Dual-Core Intel Core i5
Processor Speed: 1.6 GHz
Number of Processors: 1
Total Number of Cores: 2
L2 Cache (per Core): 256 KB
L3 Cache: 4 MB
Hyper-Threading Technology: Enabled
Memory: 8 GB
System Firmware Version: 1916.40.8.0.0 (iBridge: 20.16.420.0.0,0)
OS Loader Version: 564.40.4~27
Software:
System Software Overview:
System Version: macOS 13.0.1 (22A400)
Kernel Version: Darwin 22.1.0
Time since boot: 22 minutes, 33 seconds
Graphics/Displays:
Intel UHD Graphics 617:
Chipset Model: Intel UHD Graphics 617
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x87c0
Revision ID: 0x0002
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Framebuffer Depth: 24-Bit Color (ARGB8888)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 0.7.13
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.2.1
Babel: 2.12.1
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
build: 0.10.0
certifi: 2021.10.8
cftime: 1.6.2
charset-normalizer: 3.1.0
ChimeraX-AddCharge: 1.5.9
ChimeraX-AddH: 2.2.4
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.3.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.9.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.3
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.43.10
ChimeraX-AtomicLibrary: 10.0.6
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.3.2
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.2
ChimeraX-BondRot: 2.0.1
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.8
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.2
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.3.2
ChimeraX-ChangeChains: 1.0.2
ChimeraX-CheckWaters: 1.3.1
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.3
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.6rc202304202331
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.4.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2
ChimeraX-DistMonitor: 1.4
ChimeraX-DockPrep: 1.1.1
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: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.1
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-Label: 1.1.7
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.2
ChimeraX-Map: 1.1.4
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: 2.0.12
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.9
ChimeraX-ModelPanel: 1.3.7
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.0
ChimeraX-NRRD: 1.0
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.10.1
ChimeraX-PDB: 2.7.2
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 3.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.1
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.8.3
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.1
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.10.3
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.1.2
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Topography: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.28.4
ChimeraX-uniprot: 2.2.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.1
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.1.3
contourpy: 1.0.7
cxservices: 1.2.2
cycler: 0.11.0
Cython: 0.29.33
debugpy: 1.6.7
decorator: 5.1.1
docutils: 0.19
executing: 1.2.0
filelock: 3.9.0
fonttools: 4.39.3
funcparserlib: 1.0.1
grako: 3.16.5
h5py: 3.8.0
html2text: 2020.1.16
idna: 3.4
ihm: 0.35
imagecodecs: 2022.2.22
imagesize: 1.4.1
importlib-metadata: 6.6.0
ipykernel: 6.21.1
ipython: 8.10.0
ipython-genutils: 0.2.0
ipywidgets: 8.0.6
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.0.2
jupyter-core: 5.3.0
jupyterlab-widgets: 3.0.7
kiwisolver: 1.4.4
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.2
matplotlib: 3.6.3
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.5.6
netCDF4: 1.6.2
networkx: 2.8.8
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.4
numpy: 1.23.5
openvr: 1.23.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.3.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 3.2.0
prompt-toolkit: 3.0.38
psutil: 5.9.4
ptyprocess: 0.7.0
pure-eval: 0.2.2
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.14.0
pynrrd: 1.0.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.4.2
PyQt6-Qt6: 6.4.3
PyQt6-sip: 13.4.1
PyQt6-WebEngine-commercial: 6.4.0
PyQt6-WebEngine-Qt6: 6.4.3
python-dateutil: 2.8.2
pytz: 2023.3
pyzmq: 25.0.2
qtconsole: 5.4.0
QtPy: 2.3.1
RandomWords: 0.4.0
requests: 2.28.2
scipy: 1.9.3
setuptools: 67.4.0
setuptools-scm: 7.0.5
sfftk-rw: 0.7.3
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.4.1
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.4
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.1
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
stack-data: 0.6.2
tables: 3.7.0
tcia-utils: 1.2.0
tifffile: 2022.10.10
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.3.1
traitlets: 5.9.0
typing-extensions: 4.5.0
tzdata: 2023.3
urllib3: 1.26.15
wcwidth: 0.2.6
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.7
zipp: 3.15.0
Change History (2)
comment:1 by , 2 years ago
| Component: | Unassigned → Input/Output |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash after saving movie |
comment:2 by , 2 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
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