id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 16780 Crash moving window between screens chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-14.7-arm64-arm-64bit ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Segmentation fault Current thread 0x00000001e85e4f40 (most recent call first): File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 315 in event_loop File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1003 in init File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1166 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, 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Thunderbolt Bus: MacBook Pro, Apple Inc. Thunderbolt Bus: MacBook Pro, Apple Inc. Boot Volume File System Type: apfs Memory Module: LPDDR5, Hynix USB Device: USB31Bus USB Device: hub_device USB Device: USB31Bus USB Device: USB31Bus Display: Color LCD, 3024 x 1964 Retina, Main, MirrorOff, Online Display: DELL P2725H, 1920 x 1080 (1080p FHD - Full High Definition), MirrorOff, Online Model: Mac15,6, BootROM 11881.1.1, proc 12:6:6 processors, 18 GB, SMC Graphics: Apple M3 Pro, Apple M3 Pro, Built-In AirPort: spairport_wireless_card_type_wifi (0x14E4, 0x4388), wl0: Apr 4 2024 20:57:11 version 23.30.58.0.41.51.138 FWID 01-baea9d27 AirPort: Bluetooth: Version (null), 0 services, 0 devices, 0 incoming serial ports ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > open /Users/laschnei/Documents/KBTBD4/Models/250129.cxs format session Opened cryosparc_P2_J410_003_volume_map_sharp.mrc as #2, grid size 256,256,256, pixel 1.08, shown at level 0.12, step 1, values float32 Opened cryosparc_P2_J429_004_volume_map_sharp.mrc as #4, grid size 256,256,256, pixel 1.08, shown at level 0.12, step 1, values float32 opened ChimeraX session > close #3,5-6,8 > close #2 > select #1/D #1/E 4643 atoms, 4711 bonds, 601 residues, 1 model selected > ui tool show ""Change Chain IDs"" The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > changechains sel D Chain IDs of 153 residues changed > select #1/C #1/F 4643 atoms, 4711 bonds, 601 residues, 1 model selected > ui tool show ""Change Chain IDs"" The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > changechains sel C Chain IDs of 153 residues changed > ui tool show ""Side View"" > save /Users/laschnei/Documents/KBTBD4/Models/250204_Isolde_K4PP2A.cxs > includeMaps true > isolde start > set selectionWidth 4 Done loading forcefield > isolde set simFidelityMode Medium/Medium ISOLDE: setting sim fidelity mode to Medium/Medium nonbonded_cutoff_distance = 0.900000 use_gbsa = True gbsa_cutoff = 1.100000 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side chains... ISOLDE: Corrected atom nomenclature of 353 residues in model #1 to IUPAC-IUB standards. > clipper associate #4 toModel #1 Opened cryosparc_P2_J429_004_volume_map_sharp.mrc as #1.1.1.1, grid size 256,256,256, pixel 1.08, shown at step 1, values float32 > isolde sim start /A-D Sim termination reason: None ISOLDE: stopped sim > addh #1.2 Summary of feedback from adding hydrogens to KD4dim_PP2AAdim #1.2 --- notes | Termini for KD4dim_PP2AAdim (#1.2) chain A determined from SEQRES records Termini for KD4dim_PP2AAdim (#1.2) chain B determined from SEQRES records Termini for KD4dim_PP2AAdim (#1.2) chain C determined from SEQRES records Termini for KD4dim_PP2AAdim (#1.2) chain D determined from SEQRES records Termini for KD4dim_PP2AAdim (#1.2) chain D determined from SEQRES records 1 messages similar to the above omitted Chain-initial residues that are actual N termini: /A MET 1, /B MET 1, /C MET 1, /D MET 1 Chain-initial residues that are not actual N termini: /D GLU 449, /C GLU 449 Chain-final residues that are actual C termini: /A ALA 534, /B ALA 534, /D ALA 601, /C ALA 601 Chain-final residues that are not actual C termini: /C VAL 448, /D VAL 448 2182 hydrogen bonds Adding 'H' to /D GLU 449 Adding 'H' to /C GLU 449 /C VAL 448 is not terminus, removing H atom from 'C' /D VAL 448 is not terminus, removing H atom from 'C' 17732 hydrogens added > isolde sim start /A-D ISOLDE: started sim > ui tool show ""Ramachandran Plot"" The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > ui tool show ""Ramachandran Plot"" The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > isolde sim pause > isolde sim resume > isolde sim stop Sim termination reason: None ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side chains... ISOLDE: Corrected atom nomenclature of 74 residues in model #1.2 to IUPAC-IUB standards. ISOLDE: stopped sim > hide #!1.2 models > show #!1.2 models > hide #!1.2 models > show #!1.2 models > hide #1.3 models > hide #!1.1 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > save /Users/laschnei/Documents/KBTBD4/Models/250204_K4_PP2A_Isolde.pdb > open /Users/laschnei/Documents/KBTBD4/Models/250204_K4_PP2A_Isolde.pdb Chain information for 250204_K4_PP2A_Isolde.pdb #2 --- Chain | Description A B | No description available C | No description available D | No description available > hide #!1.2 models > open /Users/laschnei/Documents/KBTBD4/Models/250128_K4dim_PP2AAdim.pdb Chain information for 250128_K4dim_PP2AAdim.pdb #3 --- Chain | Description A B | No description available C D E F | No description available > select #3 17708 atoms, 18026 bonds, 2270 residues, 1 model selected > hide sel atoms > show sel cartoons > ~select Nothing selected > color #3 dark grey > open /Users/laschnei/Downloads/cryosparc_P2_J429_004_volume_map_sharp.mrc Opened cryosparc_P2_J429_004_volume_map_sharp.mrc as #4, grid size 256,256,256, pixel 1.08, shown at level 0.0684, step 1, values float32 > volume #4 color #7abf748f > volume #4 color #7abf7448 > volume #4 level 0.08363 > surface dust #4 size 10.8 > volume #4 level 0.08012 > volume #4 color #7abf74ab > volume #4 level 0.1317 > hide #3 models > show #3 models > hide #3 models > show #3 models > hide #3 models > ui tool show ""Side View"" > select clear > show #!4 models > hide #!4 models > SELECT #1/B:530 Unknown command: SELECT #1/B:530 > SELECT #1/B:530 Unknown command: SELECT #1/B:530 > select #1/B:530 17 atoms, 16 bonds, 1 residue, 1 model selected > view sel > show #!4 models > open /Users/laschnei/Documents/KBTBD4/Models/250204_K4_PP2A_Isolde- > coot-0.pdb Summary of feedback from opening /Users/laschnei/Documents/KBTBD4/Models/250204_K4_PP2A_Isolde-coot-0.pdb --- warning | LINK or SSBOND record from atom to itself: C in residue VAL /C:448 Chain information for 250204_K4_PP2A_Isolde-coot-0.pdb #5 --- Chain | Description A B | No description available C D | No description available > hide #!4 models > show #!4 models > hide #2 models > hide #!1 models > hide #!4 models > show #!4 models > hide #!4 models > show #3 models > hide #!5 models > show #!5 models > hide #!5 models > show #!5 models > show #!4 models ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/laschnei/Documents/KBTBD4/Models/250204_K4_PP2A_Isolde- > coot-0.pdb Summary of feedback from opening /Users/laschnei/Documents/KBTBD4/Models/250204_K4_PP2A_Isolde-coot-0.pdb --- warning | LINK or SSBOND record from atom to itself: C in residue VAL /C:448 Chain information for 250204_K4_PP2A_Isolde-coot-0.pdb #1 --- Chain | Description A B | No description available C D | No description available > open /Users/laschnei/Documents/KBTBD4/Models/250204_K4_PP2A_Isolde.pdb Chain information for 250204_K4_PP2A_Isolde.pdb #2 --- Chain | Description A B | No description available C | No description available D | No description available The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > set bgColor white > open /Users/laschnei/Downloads/cryosparc_P2_J429_004_volume_map_sharp.mrc Opened cryosparc_P2_J429_004_volume_map_sharp.mrc as #3, grid size 256,256,256, pixel 1.08, shown at level 0.0684, step 1, values float32 > surface dust #3 size 10.8 > volume #3 level 0.1208 > volume #3 color #b2b2b27c > hide #!3 models > show #!3 models > hide #!3 models > hide #2 models > show #2 models > hide #!1 models > show #!3 models > hide #!3 models > show #!3 models > combine #2 > hide #2 models > hide #!3 models > select #4/B:335-380 713 atoms, 719 bonds, 46 residues, 1 model selected > color sel crimson > show #!3 models > combine #4 > delete atoms sel > delete bonds sel > select #5/B:335-380 713 atoms, 719 bonds, 46 residues, 1 model selected > select ~sel 122602 atoms, 123858 bonds, 2 pseudobonds, 8988 residues, 8 models selected > hide #!4 models > hide #5 models > show #!4 models > hide #!4 models > ~select #1-4 34727 atoms, 35037 bonds, 2224 residues, 1 model selected > show #2 models > hide #2 models > show #!4 models > hide #!4 models > show #5 models > delete atoms sel > delete bonds sel > show #!4 models > hide #!3 models > hide #!4 models > ui tool show ""Fit in Map"" > fitmap #5 inMap #3 Fit molecule copy of copy of 250204_K4_PP2A_Isolde.pdb (#5) to map cryosparc_P2_J429_004_volume_map_sharp.mrc (#3) using 713 atoms average map value = 0.1236, steps = 88 shifted from previous position = 4.26 rotated from previous position = 18.1 degrees atoms outside contour = 337, contour level = 0.12083 Position of copy of copy of 250204_K4_PP2A_Isolde.pdb (#5) relative to cryosparc_P2_J429_004_volume_map_sharp.mrc (#3) coordinates: Matrix rotation and translation 0.95176222 -0.09230718 0.29262272 -26.33401491 0.07722540 0.99503982 0.06270569 -19.64012876 -0.29695944 -0.03708300 0.95416977 50.91144352 Axis -0.16055191 0.94858989 0.27276418 Axis point 154.06405433 0.00000000 115.67286590 Rotation angle (degrees) 18.10550038 Shift along axis -0.51563319 > show #!4 models > hide #!4 models > show #!3 models > volume #3 level 0.1652 > show #!4 models > hide #!4 models > show #!4 models > hide #!3 models > combine #4 #5 Remapping chain ID 'B' in copy of copy of 250204_K4_PP2A_Isolde.pdb #5 to 'E' > hide #!4 models > hide #5 models > ui tool show ""Change Chain IDs"" > select #6/B #6/E 8331 atoms, 8420 bonds, 1 pseudobond, 534 residues, 2 models selected > ui tool show ""Change Chain IDs"" > changechains sel B Chain IDs of 46 residues changed > save /Users/laschnei/Desktop/250204_CutBlade.pdb models #6 OpenGL version: 4.1 Metal - 88.1 OpenGL renderer: Apple M3 Pro OpenGL vendor: Apple Python: 3.11.4 Locale: UTF-8 Qt version: PyQt6 6.6.1, Qt 6.6.1 Qt runtime version: 6.6.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: Mac15,6 Model Number: Z1AV000M7SM/A Chip: Apple M3 Pro Total Number of Cores: 12 (6 performance and 6 efficiency) Memory: 18 GB System Firmware Version: 11881.1.1 OS Loader Version: 10151.140.19.700.2 Software: System Software Overview: System Version: macOS 14.7 (23H124) Kernel Version: Darwin 23.6.0 Time since boot: 2 days, 4 hours, 18 minutes Graphics/Displays: Apple M3 Pro: Chipset Model: Apple M3 Pro Type: GPU Bus: Built-In Total Number of Cores: 18 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: Yes Connection Type: Internal DELL P2725H: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 @ 100.00Hz Mirror: Off Online: Yes Rotation: Supported Installed Packages: alabaster: 0.7.16 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 Babel: 2.15.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.0.0 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.4 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.17 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.7 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.57.1 ChimeraX-AtomicLibrary: 14.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.4.6 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.12.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.7 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: 2.2.4 ChimeraX-Clipper: 0.23.1 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: 1.8 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.3 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2.4 ChimeraX-DiffPlot: 1.0 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: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ISOLDE: 1.8 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.10 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.2 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: 2.1.3 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.1 ChimeraX-MedicalToolbar: 1.0.3 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.17 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-Neuron: 1.0 ChimeraX-Nifti: 1.2 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.2 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.5 ChimeraX-PDB: 2.7.5 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: 1.1.1 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.4.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 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: 3.0.15 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.11.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.16.5 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: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.39.1 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.3 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: 1.2.1 cxservices: 1.2.2 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.1 decorator: 5.1.1 docutils: 0.20.1 executing: 2.0.1 filelock: 3.13.4 fonttools: 4.53.0 funcparserlib: 2.0.0a0 glfw: 2.7.0 grako: 3.16.5 h5py: 3.11.0 html2text: 2024.2.26 idna: 3.7 ihm: 1.0 imagecodecs: 2024.1.1 imagesize: 1.4.1 ipykernel: 6.29.2 ipython: 8.21.0 ipywidgets: 8.1.3 jedi: 0.19.1 jinja2: 3.1.4 jupyter-client: 8.6.0 jupyter-core: 5.7.2 jupyterlab-widgets: 3.0.11 kiwisolver: 1.4.5 line-profiler: 4.1.2 lxml: 5.2.1 lz4: 4.3.3 MarkupSafe: 2.1.5 matplotlib: 3.8.4 matplotlib-inline: 0.1.7 msgpack: 1.0.8 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.0 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: 10.3.0 pip: 24.0 pkginfo: 1.10.0 platformdirs: 4.2.2 prompt-toolkit: 3.0.47 psutil: 5.9.8 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pygments: 2.17.2 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.1.2 pyproject-hooks: 1.1.0 PyQt6-commercial: 6.6.1 PyQt6-Qt6: 6.6.3 PyQt6-sip: 13.6.0 PyQt6-WebEngine-commercial: 6.6.0 PyQt6-WebEngine-Qt6: 6.6.3 python-dateutil: 2.9.0.post0 pytz: 2024.1 pyzmq: 26.0.3 qtconsole: 5.5.1 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.13.0 setuptools: 69.5.1 setuptools-scm: 8.0.4 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 7.2.6 sphinx-autodoc-typehints: 2.0.1 sphinxcontrib-applehelp: 1.0.8 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.6 sphinxcontrib-htmlhelp: 2.0.5 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.7 sphinxcontrib-serializinghtml: 1.1.10 stack-data: 0.6.3 superqt: 0.6.3 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2024.1.30 tinyarray: 1.2.4 tornado: 6.4.1 traitlets: 5.14.2 typing-extensions: 4.12.2 tzdata: 2024.1 urllib3: 2.2.1 wcwidth: 0.2.13 webcolors: 1.13 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.11 }}} " defect closed normal Window Toolkit duplicate all ChimeraX