id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 20225 ChimeraX bug report submission andysen@… "{{{ The following bug report has been submitted: Platform: macOS-14.3-arm64-arm-64bit ChimeraX Version: 1.8rc202406102315 (2024-06-10 23:15:52 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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\n__OBJC_RW 2171K 1 \n__TEXT 940.6M 802 \ndyld private memory 592K 6 \nmapped file 233.7M 59 \nshared memory 3280K 24 \n=========== ======= ======= \nTOTAL 11.7G 4702 \nTOTAL, minus reserved VM space 11.6G 4702 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""8156acd0f9ddb0c84ffb7cca66ef9b45cafb247f"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""632e3df958740028737bffc0"", ""factorPackIds"" : { ""SIRI_UNDERSTANDING_NL_OVERRIDES"" : ""661e78a3b714bf7f73d2b29e"" }, ""deploymentId"" : 240000670 }, { ""rolloutId"" : ""6297d96be2c9387df974efa4"", ""factorPackIds"" : { }, ""deploymentId"" : 240000032 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.8rc202406102315 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/aninditosen/Documents/P1/baseplate/main_baseplate/h_bonf_triplex.cxs > format session Opened flip_base.mrc as #9, grid size 512,512,512, pixel 1.39, shown at level 0.272, step 1, values float32 opened ChimeraX session > lighting soft > lighting full > coulombic #1,10-11#!2,5-6,12,17 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for UpfC_af.pdb_9 SES surface #1.1: minimum, -8.94, mean -0.37, maximum 7.77 Coulombic values for gp5_af.pdb_6 SES surface #10.1: minimum, -15.35, mean -0.92, maximum 15.28 Coulombic values for gp5_af.pdb_7 SES surface #10.2: minimum, -11.39, mean -0.89, maximum 14.28 Coulombic values for gp5_af.pdb_8 SES surface #10.3: minimum, -18.47, mean -0.93, maximum 13.00 Coulombic values for gp6_af.pdb_3 SES surface #11.1: minimum, -15.10, mean -0.17, maximum 14.54 Coulombic values for gp6_af.pdb_4 SES surface #11.2: minimum, -20.20, mean -0.16, maximum 16.17 Coulombic values for gp6_af.pdb_5 SES surface #11.3: minimum, -14.77, mean -0.17, maximum 15.83 Coulombic values for BplAminus.pdb_d SES surface #2.1: minimum, -16.51, mean -1.43, maximum 17.71 Coulombic values for gp26.cif_X SES surface #5.1: minimum, -17.97, mean -1.93, maximum 8.40 Coulombic values for pmgA.cif_R SES surface #6.1: minimum, -18.54, mean -4.68, maximum 6.81 Coulombic values for gp16.pdb_p SES surface #12.1: minimum, -19.32, mean -2.22, maximum 12.53 Coulombic values for pmgG.cif_G SES surface #17.2: minimum, -14.33, mean -1.98, maximum 8.86 Coulombic values for pmgG.cif_H SES surface #17.3: minimum, -14.49, mean -1.97, maximum 9.31 Coulombic values for pmgG.cif_I SES surface #17.4: minimum, -14.63, mean -1.97, maximum 8.52 Coulombic values for pmgG.cif_J SES surface #17.5: minimum, -14.51, mean -1.97, maximum 8.67 Coulombic values for pmgG.cif_K SES surface #17.6: minimum, -14.32, mean -1.97, maximum 10.17 Coulombic values for pmgG.cif_L SES surface #17.7: minimum, -14.45, mean -1.96, maximum 11.02 To also show corresponding color key, enter the above coulombic command and add key true > ui tool show ""Side View"" > hide #!17 models > hide #16 models > hide #!11 models > hide #!10 models > hide #!5 models > hide #!6 models > show #!3 models > hide #!1 models > coulombic #!2-3,12 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for BplAminus.pdb_d SES surface #2.1: minimum, -16.51, mean -1.43, maximum 17.71 Coulombic values for BplAplus.pdb_j SES surface #3.1: minimum, -16.70, mean -1.85, maximum 13.05 Coulombic values for gp16.pdb_p SES surface #12.1: minimum, -19.32, mean -2.22, maximum 12.53 To also show corresponding color key, enter the above coulombic command and add key true > graphics silhouettes false > ~label #2-3,12 residues > select #3/j:3@NZ 1 atom, 1 residue, 1 model selected > select #12/p:55@OD1 1 atom, 1 residue, 1 model selected > select add #3/j:3@NZ 2 atoms, 2 residues, 3 models selected > label (#!3,12 & sel) text ""/{0.chain_id} {0.name} > {0.number}{0.insertion_code}"" > ~label (#!3,12 & sel) residues > label (#!3,12 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > label height 3 > ui mousemode right ""move label"" > label height 2 > select clear > label color white > save /Users/aninditosen/Desktop/image17.png supersample 3 > open /Users/aninditosen/Documents/P1/final_images/mocell/FigS2.tif Opened multi-channel map FigS2.tif as #18, 3 channels, grid size 2700,3300,1, pixel 1, shown at step 1, values uint8 > close #18.1 > close #18.2 > close #18.3 > close #9 > hide #18 models > close #18 > hide #!12 models > hide #!2 models > show #!12 models > hide #!3 models > show #!3 models > select add #3 7498 atoms, 7582 bonds, 8 pseudobonds, 477 residues, 3 models selected > transparency sel 50 > hide sel cartoons > hide sel atoms > hide #!12 models > show #!2 models > show #!12 models > hide #!12 models > show #!12 models > hide #!12 models > show #!12 models > hide #!2 models > hide #!3 models > show #!3 models > show #!2 models > hide #!12 models > select subtract #3 1 model selected > select add #3 7498 atoms, 7582 bonds, 8 pseudobonds, 477 residues, 3 models selected > transparency sel 0 > select subtract #3 1 model selected > select #2/d:14@OE2 1 atom, 1 residue, 1 model selected > select #3/j:47@NH1 1 atom, 1 residue, 1 model selected > select add #2/d:14@OE2 2 atoms, 2 residues, 3 models selected > label (#!2-3 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > select #3/j:47@1HH1 1 atom, 1 residue, 1 model selected > select add #3/j:47@NH1 2 atoms, 1 residue, 2 models selected > select add #3/j:47@2HH1 3 atoms, 1 residue, 2 models selected > label (#!3 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > ~label (#!3 & sel) residues > select add #3 7498 atoms, 7582 bonds, 8 pseudobonds, 477 residues, 4 models selected > select subtract #3 1 model selected > ~label #2-3 residues > select #2/d:14@OE2 1 atom, 1 residue, 1 model selected > select add #2/d:14@CG 2 atoms, 1 residue, 2 models selected > select add #2/d:14@CD 3 atoms, 1 residue, 2 models selected > select add #3/j:47@NH1 4 atoms, 2 residues, 3 models selected > select subtract #3/j:47@NH1 3 atoms, 1 residue, 3 models selected > select add #3/j:47@1HH1 4 atoms, 2 residues, 3 models selected > select add #3/j:47@NH1 5 atoms, 2 residues, 4 models selected > select add #3/j:47@CD 6 atoms, 2 residues, 4 models selected > select add #3/j:47@CZ 7 atoms, 2 residues, 4 models selected > label (#!2-3 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > ui mousemode right ""translate selected atoms"" > undo > coulombic sel Coulombic values for BplAminus.pdb_d SES surface #2.1: minimum, -16.51, mean -1.43, maximum 17.71 Coulombic values for BplAplus.pdb_j SES surface #3.1: minimum, -16.70, mean -1.85, maximum 13.05 To also show corresponding color key, enter the above coulombic command and add key true > select #3/j:47@1HH1 1 atom, 1 residue, 1 model selected > select #3/j:47@NH1 1 atom, 1 residue, 1 model selected > select #3/j:47@CZ 1 atom, 1 residue, 1 model selected > label (#!3 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > open > /Users/aninditosen/Documents/P1/baseplate/main_baseplate/h_bonf_triplex.cxs > format session Opened flip_base.mrc as #9, grid size 512,512,512, pixel 1.39, shown at level 0.272, step 1, values float32 opened ChimeraX session > coulombic #1,10-11#!2,5-6,12,17 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for UpfC_af.pdb_9 SES surface #1.1: minimum, -8.94, mean -0.37, maximum 7.77 Coulombic values for gp5_af.pdb_6 SES surface #10.1: minimum, -15.35, mean -0.92, maximum 15.28 Coulombic values for gp5_af.pdb_7 SES surface #10.2: minimum, -11.39, mean -0.89, maximum 14.28 Coulombic values for gp5_af.pdb_8 SES surface #10.3: minimum, -18.47, mean -0.93, maximum 13.00 Coulombic values for gp6_af.pdb_3 SES surface #11.1: minimum, -15.10, mean -0.17, maximum 14.54 Coulombic values for gp6_af.pdb_4 SES surface #11.2: minimum, -20.20, mean -0.16, maximum 16.17 Coulombic values for gp6_af.pdb_5 SES surface #11.3: minimum, -14.77, mean -0.17, maximum 15.83 Coulombic values for BplAminus.pdb_d SES surface #2.1: minimum, -16.51, mean -1.43, maximum 17.71 Coulombic values for gp26.cif_X SES surface #5.1: minimum, -17.97, mean -1.93, maximum 8.40 Coulombic values for pmgA.cif_R SES surface #6.1: minimum, -18.54, mean -4.68, maximum 6.81 Coulombic values for gp16.pdb_p SES surface #12.1: minimum, -19.32, mean -2.22, maximum 12.53 Coulombic values for pmgG.cif_G SES surface #17.2: minimum, -14.33, mean -1.98, maximum 8.86 Coulombic values for pmgG.cif_H SES surface #17.3: minimum, -14.49, mean -1.97, maximum 9.31 Coulombic values for pmgG.cif_I SES surface #17.4: minimum, -14.63, mean -1.97, maximum 8.52 Coulombic values for pmgG.cif_J SES surface #17.5: minimum, -14.51, mean -1.97, maximum 8.67 Coulombic values for pmgG.cif_K SES surface #17.6: minimum, -14.32, mean -1.97, maximum 10.17 Coulombic values for pmgG.cif_L SES surface #17.7: minimum, -14.45, mean -1.96, maximum 11.02 To also show corresponding color key, enter the above coulombic command and add key true > ui tool show ""Side View"" No visible residues selected > select add #16 43 pseudobonds, 1 model selected > select subtract #16 Nothing selected > hide #16 models > hide #!17 models > hide #!10 models > hide #!11 models > hide #!5 models > hide #!6 models > ~label #1-2,12 residues > show #!3 models > hide #!1 models > show #!2-3,12 surfaces > coulombic #!2-3,12 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for BplAminus.pdb_d SES surface #2.1: minimum, -16.51, mean -1.43, maximum 17.71 Coulombic values for BplAplus.pdb_j SES surface #3.1: minimum, -16.70, mean -1.85, maximum 13.05 Coulombic values for gp16.pdb_p SES surface #12.1: minimum, -19.32, mean -2.22, maximum 12.53 To also show corresponding color key, enter the above coulombic command and add key true > ~label #2-3,12 residues > hide #!12 models > lighting full > graphics silhouettes false > select add #2 7498 atoms, 7582 bonds, 6 pseudobonds, 477 residues, 3 models selected > transparency sel 50 > transparency sel 0 > select subtract #2 1 model selected > select #2/d:14@OE2 1 atom, 1 residue, 1 model selected > select add #3/j:47@NH1 2 atoms, 2 residues, 3 models selected > label (#!2-3 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > label color white > ui mousemode right ""move label"" > select add #2 7499 atoms, 7582 bonds, 6 pseudobonds, 478 residues, 8 models selected > select subtract #2 1 atom, 1 residue, 3 models selected > select add #3 7498 atoms, 7582 bonds, 8 pseudobonds, 477 residues, 4 models selected > select subtract #3 1 model selected > label height 2 > save /Users/aninditosen/Desktop/image17.png supersample 3 > select add #2 7498 atoms, 7582 bonds, 6 pseudobonds, 477 residues, 5 models selected > transparency sel 50 > select subtract #2 1 model selected > transparency #2.1#3.1 0 > hide #!3 models > show #!12 models > select add #12 4399 atoms, 4444 bonds, 10 pseudobonds, 278 residues, 2 models selected > transparency sel 50 > select subtract #12 1 model selected > ~label #2,12 residues > transparency #2.1#12.1 0 > select #12/p:148@CB 1 atom, 1 residue, 1 model selected > select add #12/p:148@2HD2 2 atoms, 1 residue, 2 models selected > select add #12/p:148@CD2 3 atoms, 1 residue, 2 models selected > select add #2/d:335@CE 4 atoms, 2 residues, 3 models selected > select add #2/d:335@1HZ 5 atoms, 2 residues, 4 models selected > select add #2/d:334@1HB 6 atoms, 3 residues, 4 models selected > select add #2/d:335@NZ 7 atoms, 3 residues, 4 models selected > select add #2/d:333@O 8 atoms, 4 residues, 4 models selected > label (#!2,12 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > label height 2 > ui mousemode right ""move label"" > label color white > select clear > save /Users/aninditosen/Desktop/image17.png supersample 3 > select add #12 4399 atoms, 4444 bonds, 10 pseudobonds, 278 residues, 4 models selected > transparency sel 50 > transparency sel 0 > hide #!12 models > select subtract #12 1 model selected > show #!3 models > select add #2 7498 atoms, 7582 bonds, 6 pseudobonds, 477 residues, 5 models selected > ~label (#!2 & sel) residues > select subtract #2 1 model selected > ~label #2-3 residues > select #2/d:289@1HB 1 atom, 1 residue, 1 model selected > select #2/d:289@CB 1 atom, 1 residue, 1 model selected > select add #2/d:289@1HB 2 atoms, 1 residue, 2 models selected > select add #2/d:282@NH1 3 atoms, 2 residues, 2 models selected > select add #2/d:289@N 4 atoms, 2 residues, 2 models selected > select add #3/j:217@1HD1 5 atoms, 3 residues, 3 models selected > select add #3/j:217@CD1 6 atoms, 3 residues, 4 models selected > select add #3/j:217@CG1 7 atoms, 3 residues, 4 models selected > label (#!2-3 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > select clear > label color white > label height 2 > label height 1.5 > save /Users/aninditosen/Desktop/image17.png supersample 3 > show #!12 models > hide #!2 models > ~label #3,12 residues > select add #12 4399 atoms, 4444 bonds, 10 pseudobonds, 278 residues, 2 models selected > hide #!12 models > show #!12 models > select clear > select #3/j:53@OD1 1 atom, 1 residue, 1 model selected > select add #12/p:41@NH1 2 atoms, 2 residues, 3 models selected > select add #12/p:41@NH2 3 atoms, 2 residues, 4 models selected > label (#!3,12 & sel) text ""{0.name} {0.number}{0.insertion_code}"" > label height 1.5 > label color white > select clear > save /Users/aninditosen/Desktop/image17.png supersample 3 > hide #!3 models > show #4 models > hide #4 models > show #!3 models > show #!2 models > hide #!12 models > ~label #2-3 residues > mlp #!2-3 Map values for surface ""BplAminus.pdb_d SES surface"": minimum -29.61, mean -3.276, maximum 25.53 Map values for surface ""BplAplus.pdb_j SES surface"": minimum -29.52, mean -3.189, maximum 29.02 To also show corresponding color key, enter the above mlp command and add key true > select add #2 7498 atoms, 7582 bonds, 6 pseudobonds, 477 residues, 4 models selected > transparency sel 50 > hide sel cartoons ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.8rc202406102315 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 88 OpenGL renderer: Apple M3 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 Air Model Identifier: Mac15,12 Model Number: MXCU3LL/A Chip: Apple M3 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 10151.81.1 OS Loader Version: 10151.81.1 Software: System Software Overview: System Version: macOS 14.3 (23D2057) Kernel Version: Darwin 23.3.0 Time since boot: 10 days, 12 hours, 58 minutes Graphics/Displays: Apple M3: Chipset Model: Apple M3 Type: GPU Bus: Built-In Total Number of Cores: 10 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina Display Resolution: 2560 x 1664 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal 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-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: 1.8rc202406102315 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-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 new normal Unassigned