id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 8667 Crash in event loop chimerax-bug-report@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-13.2.1-arm64-arm-64bit ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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swapped_out_or_unallocated=1.6G(100%)\nWritable regions: Total=2.9G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=2.9G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 256K 2 \nActivity Tracing 256K 1 \nCG backing stores 4128K 5 \nCG image 1392K 60 \nColorSync 592K 29 \nCoreAnimation 848K 19 \nCoreGraphics 96K 6 \nCoreUI image data 4144K 55 \nFoundation 96K 3 \nImage IO 16K 1 \nKernel Alloc Once 32K 1 \nMALLOC 1.6G 334 \nMALLOC guard page 192K 11 \nMALLOC_MEDIUM (reserved) 776.0M 9 reserved VM address space (unallocated)\nOpenGL GLSL 384K 4 \nSTACK GUARD 608K 38 \nStack 177.9M 39 \nStack Guard 56.0M 1 \nVM_ALLOCATE 219.5M 459 \nVM_ALLOCATE (reserved) 160.0M 4 reserved VM address space (unallocated)\n__AUTH 1938K 362 \n__AUTH_CONST 24.9M 590 \n__CTF 756 1 \n__DATA 20.1M 725 \n__DATA_CONST 37.4M 733 \n__DATA_DIRTY 1984K 229 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__LINKEDIT 796.4M 142 \n__OBJC_CONST 4759K 326 \n__OBJC_RO 65.5M 1 \n__OBJC_RW 1988K 1 \n__TEXT 807.2M 754 \ndyld private memory 416K 3 \nmapped file 547.5M 90 \nshared memory 1120K 28 \n=========== ======= ======= \nTOTAL 5.2G 5068 \nTOTAL, minus reserved VM space 4.3G 5068 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""61675b89201f677a9a4cbd65"", ""factorPackIds"" : { ""HEALTH_FEATURE_AVAILABILITY"" : ""63f8068a238e7b23a1f30123"" }, ""deploymentId"" : 240000055 }, { ""rolloutId"" : ""62699e1ec1ff2978b47f6c3b"", ""factorPackIds"" : { ""SIRI_FIND_MY_CONFIGURATION_FILES"" : ""631f72d1de559130376df1fb"" }, ""deploymentId"" : 240000023 } ], ""experiments"" : [ ] }, ""reportNotes"" : [ ""dyld_process_snapshot_create_for_process failed with 5"" ] } ===== Log before crash start ===== UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/villena/Downloads/7diy.cif format mmcif 7diy.cif title: Crystal structure of SARS-CoV-2 nsp10 bound to nsp14-exoribonuclease domain [more info...] Chain information for 7diy.cif #1 --- Chain | Description | UniProt A | nsp10 protein | R1AB_SARS2 B | nsp14-ExoN protein | R1AB_SARS2 Non-standard residues in 7diy.cif #1 --- MG — magnesium ion ZN — zinc ion Alignment identifier is 1/A Alignment identifier is 1/B > interfaces ~solvent 1 buried areas: B A 2219 > interfaces ~solvent 1 buried areas: B A 2219 > interfaces ~solvent 1 buried areas: B A 2219 > select 3249 atoms, 3298 bonds, 19 pseudobonds, 451 residues, 2 models selected > color (#!1 & sel) light gray > set bgColor white > color sel bychain > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > select 3249 atoms, 3298 bonds, 19 pseudobonds, 451 residues, 2 models selected > select clear > interfaces ~solvent 1 buried areas: B A 2219 > set bgColor black > set bgColor white > ui dockable true ""Chain Contacts"" > ui dockable false ""Sequence Viewer"" > help help:user/commands/interfaces.html#diagram > select clear > ui dockable false ""Chain Contacts"" > select /A:22 8 atoms, 7 bonds, 1 residue, 1 model selected > select /A:22-25 27 atoms, 26 bonds, 4 residues, 1 model selected > select /A:21 7 atoms, 6 bonds, 1 residue, 1 model selected > select /A:21-32 93 atoms, 94 bonds, 12 residues, 1 model selected > select /A:1 5 atoms, 4 bonds, 1 residue, 1 model selected > select /A:1-18 121 atoms, 122 bonds, 18 residues, 1 model selected > ui dockable true ""Chain Contacts"" > select /A:21 7 atoms, 6 bonds, 1 residue, 1 model selected > select /A:21-25 34 atoms, 33 bonds, 5 residues, 1 model selected > select /A:36-37 16 atoms, 16 bonds, 2 residues, 1 model selected > select /A:36-40 39 atoms, 39 bonds, 5 residues, 1 model selected > help help:user/commands/contacts.html#residue-plot No help found for 'help:user/commands/contacts.html#residue-plot' > help help:user/commands/contacts.html#residue-plot No help found for 'help:user/commands/contacts.html#residue-plot' > help help:user/commands/interfaces.html#diagram > select down 8 atoms, 7 bonds, 1 residue, 1 model selected > select /A:1-131 955 atoms, 976 bonds, 131 residues, 1 model selected > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > show sel cartoons > style sel stick Changed 2260 atom styles > style sel stick Changed 2260 atom styles > show sel cartoons > hide sel atoms > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > select /A:1-131 955 atoms, 976 bonds, 131 residues, 1 model selected > show sel cartoons > style sel stick Changed 955 atom styles > hide sel atoms > preset ""initial styles"" ""original look"" Using preset: Initial Styles / Original Look Preset implemented in Python; no expansion to individual ChimeraX commands available. > color sel byhetero > color sel bychain > select /A:40 8 atoms, 7 bonds, 1 residue, 1 model selected > select /A:40-45 46 atoms, 45 bonds, 6 residues, 1 model selected > show sel surfaces > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > show sel surfaces > select 3249 atoms, 3298 bonds, 19 pseudobonds, 451 residues, 2 models selected > show sel surfaces > select /A:24 5 atoms, 4 bonds, 1 residue, 1 model selected > select /A:24-25 14 atoms, 13 bonds, 2 residues, 1 model selected > select /A:22 8 atoms, 7 bonds, 1 residue, 1 model selected > select /A:22-24 18 atoms, 17 bonds, 3 residues, 1 model selected > select /A:42 7 atoms, 6 bonds, 1 residue, 1 model selected > select /A:30-42 91 atoms, 92 bonds, 13 residues, 1 model selected > select /A:7-19,22-33,71-80,102-104,106-114 349 atoms, 353 bonds, 47 residues, 1 model selected > select /A:58 7 atoms, 6 bonds, 1 residue, 1 model selected > select /A:58-63 44 atoms, 44 bonds, 6 residues, 1 model selected > select /A:40 8 atoms, 7 bonds, 1 residue, 1 model selected > select /A:40-44 38 atoms, 37 bonds, 5 residues, 1 model selected > select /A:45-46 14 atoms, 13 bonds, 2 residues, 1 model selected > select /A:39-46 59 atoms, 58 bonds, 8 residues, 1 model selected > preset ""molecular surfaces"" ""ghostly white"" Using preset: Molecular Surfaces / Ghostly White Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > show sel cartoons > color sel bychain > preset ""molecular surfaces"" ""ghostly white"" Using preset: Molecular Surfaces / Ghostly White Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > color sel bychain > select 3249 atoms, 3298 bonds, 19 pseudobonds, 451 residues, 2 models selected > color sel bychain > preset ""molecular surfaces"" ""ghostly white"" Using preset: Molecular Surfaces / Ghostly White Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > help help:user/commands/contacts.html#residue-plot No help found for 'help:user/commands/contacts.html#residue-plot' > hide sel atoms > color sel bychain > preset ""molecular surfaces"" ""ghostly white"" Using preset: Molecular Surfaces / Ghostly White Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > select clear > select /B:126 8 atoms, 7 bonds, 1 residue, 1 model selected > select /B:126-130 38 atoms, 38 bonds, 5 residues, 1 model selected > select /B:88 4 atoms, 3 bonds, 1 residue, 1 model selected > select /B:88-100 96 atoms, 97 bonds, 13 residues, 1 model selected > ui dockable false ""Chain Contacts"" > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > select clear > interfaces ~solvent 1 buried areas: B A 2219 > interfaces ~solvent 1 buried areas: B A 2219 > select /A:38-39 15 atoms, 14 bonds, 2 residues, 1 model selected > select /A:38-40 23 atoms, 22 bonds, 3 residues, 1 model selected > select /A:39 7 atoms, 6 bonds, 1 residue, 1 model selected > select /A:39-46 59 atoms, 58 bonds, 8 residues, 1 model selected > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > show sel cartoons > style sel stick Changed 59 atom styles > style sel ball Changed 59 atom styles > style sel stick Changed 59 atom styles > nucleotides sel atoms > style nucleic & sel stick Changed 0 atom styles > nucleotides sel atoms > style nucleic & sel stick Changed 0 atom styles > nucleotides sel atoms > style nucleic & sel stick Changed 0 atom styles > show sel cartoons > style sel stick Changed 59 atom styles > preset ""initial styles"" ""original look"" Using preset: Initial Styles / Original Look Preset implemented in Python; no expansion to individual ChimeraX commands available. > color sel bychain > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > select ~sel 3241 atoms, 3289 bonds, 19 pseudobonds, 450 residues, 2 models selected > select clear > color bychain > preset ""molecular surfaces"" ""ghostly white"" Using preset: Molecular Surfaces / Ghostly White Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > interfaces ~solvent 1 buried areas: B A 2219 > select ~sel 2633 atoms, 2633 bonds, 18 pseudobonds, 374 residues, 2 models selected > color (#!1 & sel) light gray > select ~sel 616 atoms, 601 bonds, 77 residues, 1 model selected > select ~sel 2633 atoms, 2633 bonds, 18 pseudobonds, 374 residues, 2 models selected > hide sel surfaces > select 3249 atoms, 3298 bonds, 19 pseudobonds, 451 residues, 2 models selected > hide sel surfaces > hide sel atoms > show sel atoms > hbonds sel reveal true 103 hydrogen bonds found > lighting soft > lighting full > lighting soft > select /A:40 8 atoms, 7 bonds, 1 residue, 1 model selected > select /A:40-46 52 atoms, 51 bonds, 1 pseudobond, 7 residues, 2 models selected > select ~sel 3197 atoms, 3245 bonds, 112 pseudobonds, 444 residues, 3 models selected > ~hbonds > color (#!1 & sel) light gray > select ~sel 52 atoms, 51 bonds, 7 residues, 1 model selected > hbonds sel reveal true 12 hydrogen bonds found > select /B:3-288 2260 atoms, 2322 bonds, 286 residues, 1 model selected > select /B:3-22 150 atoms, 152 bonds, 20 residues, 1 model selected > select /B:52 11 atoms, 10 bonds, 1 residue, 1 model selected > select /B:52 11 atoms, 10 bonds, 1 residue, 1 model selected > select > /B:34-35,38-39,53-55,86-96,104-111,116-118,122-126,131-135,138-139,182-185,199-200,216-218,223-225,235-237,240-243 486 atoms, 485 bonds, 60 residues, 1 model selected > select /B:51 12 atoms, 12 bonds, 1 residue, 1 model selected > select /B:51-52 23 atoms, 23 bonds, 2 residues, 1 model selected > select /B:37 4 atoms, 3 bonds, 1 residue, 1 model selected > select /B:37 4 atoms, 3 bonds, 1 residue, 1 model selected > select /B:38 8 atoms, 7 bonds, 1 residue, 1 model selected > select /B:38 8 atoms, 7 bonds, 1 residue, 1 model selected > select /B:39 6 atoms, 5 bonds, 1 residue, 1 model selected > select /B:39 6 atoms, 5 bonds, 1 residue, 1 model selected > color sel bychain > select /B:25 7 atoms, 6 bonds, 1 residue, 1 model selected > select /B:25 7 atoms, 6 bonds, 1 residue, 1 model selected > color sel bychain > select /B:26 10 atoms, 10 bonds, 1 residue, 1 model selected > select /B:26 10 atoms, 10 bonds, 1 residue, 1 model selected > color sel bychain > hide sel atoms > select 3249 atoms, 3298 bonds, 31 pseudobonds, 451 residues, 3 models selected > hide sel atoms > set bgColor gray > set bgColor #80808000 > set bgColor white > set bgColor #ffffff00 > preset ""molecular surfaces"" ""ghostly white"" Using preset: Molecular Surfaces / Ghostly White Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > select 3249 atoms, 3298 bonds, 31 pseudobonds, 451 residues, 3 models selected > style sel sphere Changed 3249 atom styles > style sel sphere Changed 3249 atom styles ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 83 OpenGL renderer: Apple M1 OpenGL vendor: Apple Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro17,1 Model Number: Z11B00083Y/A Chip: Apple M1 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 8419.80.7 OS Loader Version: 8419.80.7 Software: System Software Overview: System Version: macOS 13.2.1 (22D68) Kernel Version: Darwin 22.3.0 Time since boot: 2 días, 10 horas y 2 minutos Graphics/Displays: Apple M1: Chipset Model: Apple M1 Type: GPU Bus: Built-In Total Number of Cores: 8 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Q24h-10: Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition) UI Looks like: 2560 x 1440 @ 75.00Hz Main Display: Yes Mirror: Off Online: Yes Rotation: Supported Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.1.0 Babel: 2.11.0 backcall: 0.2.0 blockdiag: 3.0.0 build: 0.8.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 2.1.1 ChimeraX-AddCharge: 1.4 ChimeraX-AddH: 2.2.1 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.6 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.41.5 ChimeraX-AtomicLibrary: 8.0.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.7.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.1 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.2 ChimeraX-CommandLine: 1.2.4 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.5 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.1 ChimeraX-DistMonitor: 1.3 ChimeraX-DockPrep: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.2 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 ChimeraX-Map: 1.1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.1 ChimeraX-MatchMaker: 2.0.9 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.8 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.6 ChimeraX-ModelPanel: 1.3.6 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.1 ChimeraX-MouseModes: 1.1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.9.1 ChimeraX-PDB: 2.6.8 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.7.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.1.3 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.24.3 ChimeraX-uniprot: 2.2.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.1.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.1 ChimeraX-WebServices: 1.1.0 ChimeraX-Zone: 1.0.1 colorama: 0.4.5 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.32 debugpy: 1.6.4 decorator: 5.1.1 docutils: 0.19 entrypoints: 0.4 executing: 1.2.0 filelock: 3.7.1 fonttools: 4.38.0 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.7.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.33 imagecodecs: 2022.7.31 imagesize: 1.4.1 importlib-metadata: 5.1.0 ipykernel: 6.15.3 ipython: 8.4.0 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.1.2 jupyter-client: 7.3.4 jupyter-core: 5.1.0 kiwisolver: 1.4.4 line-profiler: 3.5.1 lxml: 4.9.1 lz4: 4.0.2 MarkupSafe: 2.1.1 matplotlib: 3.5.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.0 networkx: 2.8.5 numexpr: 2.8.4 numpy: 1.23.1 openvr: 1.23.701 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.2.0 pip: 22.2.2 pkginfo: 1.8.3 platformdirs: 2.5.4 prompt-toolkit: 3.0.33 psutil: 5.9.1 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.12.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2022.6 pyzmq: 24.0.1 qtconsole: 5.3.1 QtPy: 2.3.0 RandomWords: 0.4.0 requests: 2.28.1 scipy: 1.9.0 setuptools: 65.1.1 setuptools-scm: 7.0.5 sfftk-rw: 0.7.2 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 5.1.1 sphinx-autodoc-typehints: 1.19.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 tifffile: 2022.7.31 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.2 traitlets: 5.3.0 typing-extensions: 4.4.0 urllib3: 1.26.13 wcwidth: 0.2.5 webcolors: 1.12 wheel: 0.37.1 wheel-filename: 1.4.1 zipp: 3.11.0 }}} " defect closed normal Core can't reproduce Tom Goddard all ChimeraX