id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 9746 Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device returned engine == 0 chimerax-bug-report@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 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 0x0000000117462600 (most recent call first): File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py"", line 275 in event_loop File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 892 in init File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 1043 in File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 87 in _run_code File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 197 in _run_module_as_main {""app_name"":""ChimeraX"",""timestamp"":""2023-09-11 08:40:05.00 -0700"",""app_version"":""1.6.1"",""slice_uuid"":""5df621ee-554e-36a8-b448-93b2334e5480"",""build_version"":""1.6.1.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":0,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 12.2.1 (21D62)"",""incident_id"":""6662F9D1-61EC-43F4-A53B-83C4F2F27065"",""name"":""ChimeraX""} { ""uptime"" : 230000, ""procLaunch"" : ""2023-09-09 15:05:15.9397 -0700"", ""procRole"" : ""Background"", ""version"" : 2, ""userID"" : 501, ""deployVersion"" : 210, ""modelCode"" : ""MacBookPro16,2"", ""procStartAbsTime"" : 90308702917610, ""coalitionID"" : 20512, ""osVersion"" : { ""train"" : ""macOS 12.2.1"", ""build"" : ""21D62"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2023-09-11 08:39:50.3776 -0700"", ""incident"" : ""6662F9D1-61EC-43F4-A53B-83C4F2F27065"", ""bug_type"" : ""309"", ""pid"" : 49578, ""procExitAbsTime"" : 234934738906247, ""cpuType"" : ""X86-64"", ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.6.1"",""CFBundleVersion"":""1.6.1.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""E5C324D9-64F9-5D64-BF03-E50A2944A6D5"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""708048E2-2049-C5D8-7FD8-3A69D0587290"", ""wakeTime"" : 4, ""bridgeVersion"" : {""build"":""19P744"",""train"":""6.2""}, ""sleepWakeUUID"" : ""A5732218-BC0C-4908-89B3-86FC08B65CD7"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x18 is not in any region. 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All rights reserved. How to cite UCSF ChimeraX > open /Users/fli05@amgen.com/Library/CloudStorage/OneDrive- > Amgen/Projects/Postdoc/HGSNAT/BoyangStructure/CoAProduct_P130J67/cryosparc_P130_J67_008_volume_map_sharp.mrc Opened cryosparc_P130_J67_008_volume_map_sharp.mrc as #1, grid size 432,432,432, pixel 0.813, shown at level 0.0404, step 2, values float32 > volume #1 step 1 > volume #1 level 0.2751 > volume #1 color #b2b2b256 > open > /Users/fli05@amgen.com/Documents/Phenix_old/HGSNAT_ActylCoA/RealSpaceRefine_12/Coot_Fei- > coot-12_real_space_refined_012_edit.pdb Summary of feedback from opening /Users/fli05@amgen.com/Documents/Phenix_old/HGSNAT_ActylCoA/RealSpaceRefine_12/Coot_Fei- coot-12_real_space_refined_012_edit.pdb --- warnings | Start residue of secondary structure not found: SHEET 8 8 1 SER A 175 GLU A 185 0 Bad residue range for secondary structure: SHEET 9 9 1 GLN B 81 ASN A 88 0 Bad residue range for secondary structure: SHEET 10 10 1 LEU B 95 SER A 101 0 Bad residue range for secondary structure: SHEET 11 11 1 GLN B 110 VAL A 115 0 Bad residue range for secondary structure: SHEET 12 12 1 SER B 125 SER A 132 0 Bad residue range for secondary structure: SHEET 13 13 1 SER B 137 ASP A 143 0 2 messages similar to the above omitted Start residue of secondary structure not found: SHEET 16 16 1 SER B 175 GLU A 185 0 Chain information for Coot_Fei-coot-12_real_space_refined_012_edit.pdb #2 --- Chain | Description A | No description available B | No description available > select /A:208 8 atoms, 7 bonds, 1 residue, 1 model selected > select up 170 atoms, 171 bonds, 25 residues, 1 model selected > select up 1148 atoms, 1174 bonds, 153 residues, 1 model selected > select up 4361 atoms, 4491 bonds, 553 residues, 1 model selected > select up 8615 atoms, 8868 bonds, 1098 residues, 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #2,1,0,0,-2.1046,0,1,0,1.2981,0,0,1,-1.7001 > ui tool show ""Fit in Map"" > fitmap #2 inMap #1 Fit molecule Coot_Fei-coot-12_real_space_refined_012_edit.pdb (#2) to map cryosparc_P130_J67_008_volume_map_sharp.mrc (#1) using 8615 atoms average map value = 0.08482, steps = 92 shifted from previous position = 1.9 rotated from previous position = 0.389 degrees atoms outside contour = 6936, contour level = 0.27514 Position of Coot_Fei-coot-12_real_space_refined_012_edit.pdb (#2) relative to cryosparc_P130_J67_008_volume_map_sharp.mrc (#1) coordinates: Matrix rotation and translation 0.99997698 -0.00269419 0.00622701 -3.55319933 0.00269415 0.99999637 0.00001489 1.66498344 -0.00622703 0.00000189 0.99998061 -2.10998207 Axis -0.00095809 0.91778132 0.39708505 Axis point -384.84735319 0.00000000 569.08167256 Rotation angle (degrees) 0.38874681 Shift along axis 0.69365263 > view matrix models > #2,0.99998,-0.0026942,0.006227,-3.582,0.0026941,1,1.4889e-05,-2.311,-0.006227,1.8879e-06,0.99998,0.23463 > fitmap #2 inMap #1 Fit molecule Coot_Fei-coot-12_real_space_refined_012_edit.pdb (#2) to map cryosparc_P130_J67_008_volume_map_sharp.mrc (#1) using 8615 atoms average map value = 0.435, steps = 56 shifted from previous position = 2.73 rotated from previous position = 0.309 degrees atoms outside contour = 3116, contour level = 0.27514 Position of Coot_Fei-coot-12_real_space_refined_012_edit.pdb (#2) relative to cryosparc_P130_J67_008_volume_map_sharp.mrc (#1) coordinates: Matrix rotation and translation 0.99999227 -0.00312062 0.00239020 -3.05911280 0.00311157 0.99998801 0.00378233 -4.34423537 -0.00240198 -0.00377486 0.99998999 -2.14970990 Axis -0.69301032 0.43945281 0.57150496 Axis point 0.00000000 -418.13769767 1028.99749445 Rotation angle (degrees) 0.31240321 Shift along axis -1.01765959 > select clear > select /A:197 5 atoms, 4 bonds, 1 residue, 1 model selected > select up 170 atoms, 171 bonds, 25 residues, 1 model selected > select up 1148 atoms, 1174 bonds, 153 residues, 1 model selected > select up 4361 atoms, 4491 bonds, 553 residues, 1 model selected > select up 8615 atoms, 8868 bonds, 1098 residues, 1 model selected > show sel atoms > select clear > ui windowfill toggle > open > /Users/fli05@amgen.com/Downloads/cryosparc_P139_J101_class_00_final_volume.mrc Opened cryosparc_P139_J101_class_00_final_volume.mrc as #3, grid size 128,128,128, pixel 2.03, shown at level 0.0749, step 1, values float32 > volume #3 level 0.297 > close #3 > open > /Users/fli05@amgen.com/Downloads/cryosparc_P139_J101_class_01_final_volume.mrc Opened cryosparc_P139_J101_class_01_final_volume.mrc as #3, grid size 128,128,128, pixel 2.03, shown at level 0.0764, step 1, values float32 > volume #3 level 0.1619 > close #3 > ui windowfill toggle > open > /Users/fli05@amgen.com/Documents/Phenix_old/HGSNAT_ActylCoA/cryosparc_P118_J100_008_volume_map_sharp.mrc Opened cryosparc_P118_J100_008_volume_map_sharp.mrc as #3, grid size 440,440,440, pixel 0.813, shown at level 0.0461, step 2, values float32 > volume #3 step 1 > volume #3 level 0.2823 > volume #3 color #b2b2ff80 > fitmap #3 inMap #1 Fit map cryosparc_P118_J100_008_volume_map_sharp.mrc in map cryosparc_P130_J67_008_volume_map_sharp.mrc using 71667 points correlation = 0.3375, correlation about mean = 0.1019, overlap = 4820 steps = 96, shift = 3.38, angle = 4.3 degrees Position of cryosparc_P118_J100_008_volume_map_sharp.mrc (#3) relative to cryosparc_P130_J67_008_volume_map_sharp.mrc (#1) coordinates: Matrix rotation and translation 0.99953376 -0.01675368 0.02552601 -0.02662221 0.01846348 0.99749465 -0.06828996 7.66227057 -0.02431795 0.06872942 0.99733891 -10.07004229 Axis 0.91348327 0.33230057 0.23478638 Axis point 0.00000000 151.15527842 105.88994094 Rotation angle (degrees) 4.30112474 Shift along axis 0.15754914 > ui windowfill toggle > select #3 2 models selected > view matrix models > #3,0.99953,-0.016754,0.025526,-3.0245,0.018463,0.99749,-0.06829,5.3911,-0.024318,0.068729,0.99734,-10.717 > ui windowfill toggle > fitmap #3 inMap #1 Fit map cryosparc_P118_J100_008_volume_map_sharp.mrc in map cryosparc_P130_J67_008_volume_map_sharp.mrc using 71667 points correlation = 0.932, correlation about mean = 0.7273, overlap = 2.136e+04 steps = 84, shift = 1.88, angle = 4.41 degrees Position of cryosparc_P118_J100_008_volume_map_sharp.mrc (#3) relative to cryosparc_P130_J67_008_volume_map_sharp.mrc (#1) coordinates: Matrix rotation and translation 0.99999302 -0.00320200 0.00192641 -2.96530932 0.00319526 0.99998881 0.00348929 -4.30357589 -0.00193757 -0.00348311 0.99999206 -2.29020858 Axis -0.68216195 0.37804174 0.62589098 Axis point 0.00000000 -473.63345400 1119.43716713 Rotation angle (degrees) 0.29281260 Shift along axis -1.03753101 > select clear > ui windowfill toggle > hide #!2 models > show #!2 models > hide #!1 models > show #!1 models > hide #!3 models > show #!3 models > hide #!1 models > volume #3 level 0.243 > volume #3 level 0.1965 > volume #3 level 0.3395 > volume #3 level 0.2644 > volume #3 level 0.3467 Unsupported scale factor (0.000000) detected on Display0 QPainter::begin: Paint device returned engine == 0, type: 3 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/fli05@amgen.com/Downloads/cryosparc_P139_J104_class_00_00122_volume_sharp.mrc Opened cryosparc_P139_J104_class_00_00122_volume_sharp.mrc as #1, grid size 128,128,128, pixel 2.03, shown at level 0.0436, step 1, values float32 > volume #1 level 0.3403 OpenGL version: 4.1 INTEL-18.4.6 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics OpenGL Engine 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 Pro Model Identifier: MacBookPro16,2 Processor Name: Quad-Core Intel Core i7 Processor Speed: 2.3 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 512 KB L3 Cache: 8 MB Hyper-Threading Technology: Enabled Memory: 16 GB System Firmware Version: 1715.81.2.0.0 (iBridge: 19.16.10744.0.0,0) OS Loader Version: 540.80.2~11 Software: System Software Overview: System Version: macOS 12.2.1 (21D62) Kernel Version: Darwin 21.3.0 Time since boot: 3 days 14 minutes Graphics/Displays: Intel Iris Plus Graphics: Chipset Model: Intel Iris Plus Graphics Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x8a53 Revision ID: 0x0007 Metal Family: Supported, Metal GPUFamily macOS 2 Displays: P27h-20: Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition) UI Looks like: 2560 x 1440 @ 59.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: V908KKL1 Main Display: Yes Mirror: Off Online: Yes Rotation: Supported Automatically Adjust Brightness: Yes Connection Type: Thunderbolt/DisplayPort 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: 1.5.9.1 ChimeraX-AddH: 2.2.5 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: 1.6.1 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: 3.5.0 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 }}} " defect closed normal Window Toolkit duplicate Tom Goddard all ChimeraX