id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 7007 Long atom spec crashes ChimeraX wenxiang.cao@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.22000 ChimeraX Version: 1.5.dev202205200152 (2022-05-20 01:52:55 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Windows fatal exception: stack overflow Current thread 0x0000624c (most recent call first): File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 129 in __hasattribute__ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 138 in _safekey File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 71 in set File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 106 in __setitem__ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 61 in upairs File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 67 in update File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 19 in __init__ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\ast.py"", line 90 in copy File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 642 in _try File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\contextlib.py"", line 119 in __enter__ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 679 in _choice File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\contextlib.py"", line 119 in __enter__ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 688 in _optional File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\contextlib.py"", line 119 in __enter__ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 427 in _part_range_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 409 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 458 in _call File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 59 in wrapper File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\chimerax\core\commands\_atomspec.py"", line 412 in _part_list_ File ""D:\program\ChimeraX 1.5.dev202205200152\bin\lib\site-packages\grako\contexts.py"", line 497 in _invoke_rule ... ===== Log before crash start ===== > open ""F:/large files/Glen Hocky 22-05-12/Cofilactin-JunFan-periodic- > nowater.pdb"" Chain information for Cofilactin-JunFan-periodic-nowater.pdb #1 --- Chain | Description A | No description available > preset cartoons/nucleotides ribbons/slabs Using preset: Cartoons/Nucleotides / Ribbons/Slabs Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect nucleotides tube/slab shape box > select /A:2-166 56518 atoms, 57057 bonds, 3630 residues, 1 model selected > select /A:2-166 56518 atoms, 57057 bonds, 3630 residues, 1 model selected > select add #1 93970 atoms, 94237 bonds, 22 pseudobonds, 6608 residues, 3 models selected > select clear > hide solvent > select solvent 378 atoms, 378 residues, 1 model selected > hide sel > select water Expected an objects specifier or a keyword > select ions 279 atoms, 279 residues, 1 model selected > hide sel > show sel > show solvent > select MG Expected an objects specifier or a keyword > select :Mg 11 atoms, 11 residues, 1 model selected > select clear > select :Mg 11 atoms, 11 residues, 1 model selected > select clear > select :cla 268 atoms, 268 residues, 1 model selected > help help:user QMainWindowLayout::tabPosition called with out-of-bounds value '0' > select :cla 268 atoms, 268 residues, 1 model selected > hide sel > hide solvent > select :41-52 3928 atoms, 3894 bonds, 276 residues, 1 model selected > select :6-375 91934 atoms, 92466 bonds, 6211 residues, 1 model selected > select clear > select :6-10 1402 atoms, 1375 bonds, 115 residues, 1 model selected > select :1-10 2727 atoms, 2695 bonds, 219 residues, 1 model selected Alignment identifier is 1/A ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.5.dev202205200152 (2022-05-20) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 3.3.14822 Core Profile Forward-Compatible Context 20.50.30.05 27.20.15030.5001 OpenGL renderer: AMD Radeon(TM) RX Vega 10 Graphics OpenGL vendor: ATI Technologies Inc. Python: 3.9.11 Locale: en_US.cp936 Qt version: PyQt6 6.3.0, Qt 6.3.0 Qt runtime version: 6.3.0 Qt platform: windows Manufacturer: HP Model: HP Laptop 17-ca1xxx OS: Microsoft Windows 11 Home (Build 22000) Memory: 14,942,511,104 MaxProcessMemory: 137,438,953,344 CPU: 8 AMD Ryzen 7 3700U with Radeon Vega Mobile Gfx OSLanguage: en-US Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 Babel: 2.10.1 backcall: 0.2.0 blockdiag: 3.0.0 certifi: 2022.5.18.1 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: 1.39.2 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: 1.5.dev202205200152 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: 1.20 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-Zone: 1.0 colorama: 0.4.4 comtypes: 1.1.10 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 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 openvr: 1.16.802 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 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 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 pywin32: 303 pyzmq: 23.0.0 qtconsole: 5.3.0 QtPy: 2.1.0 RandomWords: 0.3.0 requests: 2.27.1 scipy: 1.7.3 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 WMI: 1.5.1 }}} " defect closed normal Command Line duplicate chimera-programmers all ChimeraX