id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 9606 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-13.4.1-arm64-arm-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. 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240000302 }, { ""rolloutId"" : ""60f8ddccefea4203d95cbeef"", ""factorPackIds"" : { ""NETWORK_SERVICE_PROXY_CONFIG_UPDATE"" : ""6401414cc679dd6bc5828183"" }, ""deploymentId"" : 240000025 } ], ""experiments"" : [ { ""treatmentId"" : ""3a3cf641-8471-4e4e-9ad4-81d0ede970fd"", ""experimentId"" : ""64a84dae90d82611a0bd7d3d"", ""deploymentId"" : 400000010 }, { ""treatmentId"" : ""6dd670af-0633-45e4-ae5f-122ae4df02be"", ""experimentId"" : ""64406ba83deb637ac8a04419"", ""deploymentId"" : 900000017 } ] } } ===== Log before crash start ===== 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/leanaherlinghaus/Projects/runs1/input110/relaxed_model_3_multimer_v3_pred_3.pdb Chain information for relaxed_model_3_multimer_v3_pred_3.pdb #1 --- Chain | Description A B | No description available > select #1/A 1726 atoms, 1746 bonds, 102 residues, 1 model selected Alignment identifier is 1/A > open /Users/leanaherlinghaus/Downloads/whole-motor-fitted.cxs format session Opened WT-fullmotor_job940_postprocess_hidedust.mrc as #1, grid size 800,800,800, pixel 2.2, shown at level 0.000998, step 1, values float32 Opened scaffold_job975_lafter_map.mrc as #2, grid size 800,800,800, pixel 2.2, shown at level 0.0449, step 1, values float32 opened ChimeraX session > hide #36 models > hide #35 models > hide #!32 models > hide #!31 models > hide #!29 models > hide #!28 models > hide #!27 models > hide #!26 models > hide #!25 models > hide #!24 models > hide #!23 models > hide #!22 models > hide #21 models > hide #!30 models > hide #33 models > hide #34 models > hide #!13 models > hide #12 models > hide #11 models > hide #10 models > hide #9 models > hide #8 models > hide #7 models > hide #6.3 models > show #6.3 models > hide #!6 models > hide #!5 models > hide #4 models > hide #!1 models > ui mousemode right zoom > undo > redo > hide #!1 models > hide #4 models > view orient > turn 90,0,0 > open > /Users/leanaherlinghaus/Projects/runs1/input106/relaxed_model_4_multimer_v3_pred_2.pdb Chain information for relaxed_model_4_multimer_v3_pred_2.pdb #3 --- Chain | Description A | No description available B | No description available > matchmaker #3 with #16 Expected a keyword > matchmaker #3 to #16 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_4_multimer_v3_pred_2.pdb, chain B (#3), sequence alignment score = 3977.3 RMSD between 291 pruned atom pairs is 1.020 angstroms; (across all 772 pairs: 11.643) > select #3 23895 atoms, 24112 bonds, 1481 residues, 1 model selected > view sel > view orient > view sel > color sel bychain > turn 90,0,0 > select subtract #3 Nothing selected > hide #14 models > hide #!15 models > hide #17 models > hide #18 models > hide #!19 models > matchmaker #3 to 16/B Invalid ""to"" argument: invalid atoms specifier > matchmaker #3 to #16/B 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain B (#16) with relaxed_model_4_multimer_v3_pred_2.pdb, chain A (#3), sequence alignment score = 3461.8 RMSD between 623 pruned atom pairs is 0.842 angstroms; (across all 682 pairs: 2.146) > matchmaker #3 to #16/A 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_4_multimer_v3_pred_2.pdb, chain B (#3), sequence alignment score = 3977.3 RMSD between 291 pruned atom pairs is 1.020 angstroms; (across all 772 pairs: 11.643) > close #3 > show #17 models > open > /Users/leanaherlinghaus/Projects/runs1/input110/relaxed_model_3_multimer_v3_pred_3.pdb Chain information for relaxed_model_3_multimer_v3_pred_3.pdb #3 --- Chain | Description A B | No description available > matchmaker #3 to #17 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 pflD_fitted_C17.pdb, chain A (#17) with relaxed_model_3_multimer_v3_pred_3.pdb, chain A (#3), sequence alignment score = 370.6 RMSD between 33 pruned atom pairs is 0.559 angstroms; (across all 73 pairs: 18.669) > select #3 3452 atoms, 3492 bonds, 204 residues, 1 model selected > view sel > view orient > turn 90,0,0 > color sel bychain > select subtract #3 Nothing selected > fitmap #3 inMap #2 Fit molecule relaxed_model_3_multimer_v3_pred_3.pdb (#3) to map scaffold_job975_lafter_map.mrc (#2) using 3452 atoms average map value = 0.06296, steps = 64 shifted from previous position = 2.66 rotated from previous position = 11.9 degrees atoms outside contour = 1822, contour level = 0.044943 Position of relaxed_model_3_multimer_v3_pred_3.pdb (#3) relative to scaffold_job975_lafter_map.mrc (#2) coordinates: Matrix rotation and translation 0.98343439 0.00807635 -0.18108443 831.03567877 0.04048845 0.96397908 0.26287833 556.29061750 0.17668470 -0.26585542 0.94768318 917.38574624 Axis -0.82714804 -0.55969197 0.05070530 Axis point 0.00000000 3553.94678558 398.20045580 Rotation angle (degrees) 18.63949364 Shift along axis -952.22459904 > close #3 > view orient > open > /Users/leanaherlinghaus/Projects/runs2/input7/relaxed_model_2_multimer_v3_pred_3.pdb Chain information for relaxed_model_2_multimer_v3_pred_3.pdb #3 --- Chain | Description A | No description available B | No description available > matchmaker #3 to #16 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_2_multimer_v3_pred_3.pdb, chain B (#3), sequence alignment score = 3838.5 RMSD between 277 pruned atom pairs is 1.052 angstroms; (across all 773 pairs: 8.328) > turn 90,0,0 > turn 0,45,0 > select #3 25906 atoms, 26147 bonds, 1608 residues, 1 model selected > color sel bychain > view sel > select subtract #3 Nothing selected > matchmaker #3 to 16/B Invalid ""to"" argument: invalid atoms specifier > matchmaker #3 to #16/B 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain B (#16) with relaxed_model_2_multimer_v3_pred_3.pdb, chain A (#3), sequence alignment score = 3172.6 RMSD between 86 pruned atom pairs is 0.809 angstroms; (across all 682 pairs: 71.124) > matchmaker #3 to #16/A 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_2_multimer_v3_pred_3.pdb, chain B (#3), sequence alignment score = 3838.5 RMSD between 277 pruned atom pairs is 1.052 angstroms; (across all 773 pairs: 8.328) > view orient > turn 90,0,0 > turn 0,45,0 > select #3 25906 atoms, 26147 bonds, 1608 residues, 1 model selected > view sel > select subtract #3 Nothing selected > save /Users/leanaherlinghaus/Desktop/image23.png supersample 3 > turn 90,0,0 > select #3 25906 atoms, 26147 bonds, 1608 residues, 1 model selected > view sel > select subtract #3 Nothing selected > save /Users/leanaherlinghaus/Desktop/image24.png supersample 3 > matchmaker #3 to 16/B Invalid ""to"" argument: invalid atoms specifier > matchmaker #3 to #16/B 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain B (#16) with relaxed_model_2_multimer_v3_pred_3.pdb, chain A (#3), sequence alignment score = 3172.6 RMSD between 86 pruned atom pairs is 0.809 angstroms; (across all 682 pairs: 71.124) > select #3 25906 atoms, 26147 bonds, 1608 residues, 1 model selected > view sel > select subtract #3 Nothing selected > matchmaker #3 to #16 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_2_multimer_v3_pred_3.pdb, chain B (#3), sequence alignment score = 3838.5 RMSD between 277 pruned atom pairs is 1.052 angstroms; (across all 773 pairs: 8.328) > select #3 25906 atoms, 26147 bonds, 1608 residues, 1 model selected > view sel > turn 90,0,0 > select subtract #3 Nothing selected > save /Users/leanaherlinghaus/Desktop/image25.png supersample 3 > turn 90,0,0 > hide #20 models > hide #17 models > save /Users/leanaherlinghaus/Desktop/image26.png supersample 3 > turn 90,0,0 > save /Users/leanaherlinghaus/Desktop/image27.png supersample 3 > hide #!2 models > hide #16 models > view orient > save /Users/leanaherlinghaus/Desktop/image28.png supersample 3 > show #!2 models > show #16 models > save /Users/leanaherlinghaus/Desktop/image29.png supersample 3 > hide #3 models > open > /Users/leanaherlinghaus/Projects/runs1/input106/relaxed_model_4_multimer_v3_pred_2.pdb Chain information for relaxed_model_4_multimer_v3_pred_2.pdb #37 --- Chain | Description A | No description available B | No description available > matchmaker #37 to #16 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_4_multimer_v3_pred_2.pdb, chain B (#37), sequence alignment score = 3977.3 RMSD between 291 pruned atom pairs is 1.020 angstroms; (across all 772 pairs: 11.643) > select #3 25906 atoms, 26147 bonds, 1608 residues, 1 model selected > color #16,37 bychain > undo > select #37 23895 atoms, 24112 bonds, 1481 residues, 1 model selected > color sel bychain > select subtract #37 Nothing selected > save /Users/leanaherlinghaus/Desktop/image30.png supersample 3 > hide #!2 models > hide #16 models > save /Users/leanaherlinghaus/Desktop/image31.png supersample 3 > show #!2 models > show #16 models > matchmaker #3 to #16/A/1.1 Invalid ""to"" argument: only initial part ""#16/A/1"" of atom specifier valid > matchmaker #3 to #16/A/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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_2_multimer_v3_pred_3.pdb, chain B (#3), sequence alignment score = 3838.5 RMSD between 277 pruned atom pairs is 1.052 angstroms; (across all 773 pairs: 8.328) > matchmaker #3 to #16/A/2 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 PflAB_dimer_isolde_v2_fitted_C17.pdb, chain A (#16) with relaxed_model_2_multimer_v3_pred_3.pdb, chain B (#3), sequence alignment score = 3838.5 RMSD between 277 pruned atom pairs is 1.052 angstroms; (across all 773 pairs: 8.328) > hide #!2 models > show #!2 models 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 OpenGL version: 4.1 Metal - 83.1 OpenGL renderer: Apple M1 OpenGL vendor: Apple 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: MacBookPro17,1 Model Number: Z11C000LTSM/A Chip: Apple M1 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 8422.121.1 OS Loader Version: 8422.121.1 Software: System Software Overview: System Version: macOS 13.4.1 (c) (22F770820d) Kernel Version: Darwin 22.5.0 Time since boot: 3 days, 7 hours, 27 minutes 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: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina 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: 1.5.9.1 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