id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 16896 Crash in event loop releasing memory chimerax-bug-report@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-15.3.1-arm64-arm-64bit ChimeraX Version: 1.9 (2024-12-11 19:11:19 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 0x00000001f6618840 (most recent call first): File ""/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 330 in event_loop File ""/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1054 in init File ""/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1217 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, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.pdb_lib._load_libs, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, lxml._elementpath, lxml.etree, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.pdb._pdbio, PIL._imagingmath, chimerax.atom_search.ast, chimerax.chem_group._chem_group, chimerax.coulombic._esp, chimerax.mlp._mlp, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets (total: 58) {""app_name"":""ChimeraX"",""timestamp"":""2025-02-18 18:58:25.00 +0100"",""app_version"":""1.9.0"",""slice_uuid"":""17982d98-65bc-3327-8526-577ec996453c"",""build_version"":""1.9.0.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":1,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 15.3.1 (24D70)"",""roots_installed"":0,""name"":""ChimeraX"",""incident_id"":""77AFF539-98C9-4D63-A857-33E75FE3AF96""} { ""uptime"" : 3100, ""procRole"" : ""Foreground"", ""version"" : 2, ""userID"" : 501, ""deployVersion"" : 210, ""modelCode"" : ""Mac14,2"", ""coalitionID"" : 1329, ""osVersion"" : { ""train"" : ""macOS 15.3.1"", ""build"" : ""24D70"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2025-02-18 18:58:21.5881 +0100"", ""codeSigningMonitor"" : 1, ""incident"" : ""77AFF539-98C9-4D63-A857-33E75FE3AF96"", ""pid"" : 1066, ""translated"" : false, ""cpuType"" : ""ARM-64"", ""roots_installed"" : 0, ""bug_type"" : ""309"", ""procLaunch"" : ""2025-02-18 17:37:16.8291 +0100"", ""procStartAbsTime"" : 3789814137, ""procExitAbsTime"" : 74765222065, ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.9.0"",""CFBundleVersion"":""1.9.0.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""A8C654F3-8E06-5A7D-8F04-9285A7AD7633"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""F7545098-703F-1A56-913E-C029D7FC81E3"", ""lowPowerMode"" : 1, ""codeSigningID"" : ""edu.ucsf.cgl.ChimeraX"", ""codeSigningTeamID"" : ""LWV8X224YF"", ""codeSigningFlags"" : 570491649, ""codeSigningValidationCategory"" : 6, ""codeSigningTrustLevel"" : 4294967295, ""instructionByteStream"" : {""beforePC"":""fyMD1f17v6n9AwCRcuD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A=="",""atPC"":""AwEAVH8jA9X9e7+p\/QMAkWfg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g==""}, ""bootSessionUUID"" : ""72C6953D-A908-4CA9-82AB-8D9092BF4465"", ""wakeTime"" : 2320, ""sleepWakeUUID"" : ""921F52B8-91EE-4EFA-A4FB-49DE3B784A7F"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x6193d0e056d0 is not in any region. 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All rights reserved. How to cite UCSF ChimeraX > open 3iyu fromDatabase pdb format mmcif Summary of feedback from opening 3iyu fetched from pdb --- warning | PDB entry 3IYU has been replaced by 4V7Q notes | Fetching compressed mmCIF 3iyu from http://files.rcsb.org/download/3iyu.cif Fetching CCD NAG from https://files.wwpdb.org/pub/pdb/refdata/chem_comp/G/NAG/NAG.cif 3iyu title: Atomic model of an infectious rotavirus particle [more info...] Chain information for 3iyu #1 --- Chain | Description | UniProt A F G H I J K L M N O P Q | Outer layer protein VP7 | C3RX25_9REOV 51-326 X Y Z | Outer capsid protein VP4 | C3RX20_9REOV 1-776 Non-standard residues in 3iyu #1 --- NAG — N-acetyl-D-glucosamine 3iyu mmCIF Assemblies --- 1| complete icosahedral assembly 2| icosahedral asymmetric unit 3| icosahedral pentamer 4| icosahedral 23 hexamer 5| icosahedral asymmetric unit, std point frame > ui mousemode right ""next docked"" Cell requested for row 0 is out of bounds for table with 0 rows! Resizing table model. > open C3RX25 fromDatabase uniprot associate #1/A,F,G,H,I,J,K,L,M,N,O,P,Q Summary of feedback from opening C3RX25 fetched from uniprot --- notes | UniProt identifier C3RX25 maps to entry P12476 Fetching compressed P12476 UniProt info from https://www.uniprot.org/uniprot/P12476.xml Alignment identifier is C3RX25 Associated 3iyu chain A to C3RX25 with 0 mismatches Associated 3iyu chain F to C3RX25 with 0 mismatches Associated 3iyu chain G to C3RX25 with 0 mismatches Associated 3iyu chain H to C3RX25 with 0 mismatches Associated 3iyu chain I to C3RX25 with 0 mismatches 8 messages similar to the above omitted Opened UniProt C3RX25 QAccessibleList::child: Invalid index at: 0 0 > select /A,H,M,Q:58-312/F:58-320/G,J-L,P/I:52-324/N:52-326/O:52-325 27379 atoms, 28004 bonds, 3466 residues, 1 model selected > select /A,H,M,Q:58-312/F:58-320/G,J-L,P/I:52-324/N:52-326/O:52-325 27379 atoms, 28004 bonds, 3466 residues, 1 model selected > select /P:51 9 atoms, 8 bonds, 1 residue, 1 model selected > select /A-F,H,M,Q:58-240/G,I-J,L,N-O:52-240/K:53-240/P:51-240 19053 atoms, 19477 bonds, 2427 residues, 1 model selected > select /P:51 9 atoms, 8 bonds, 1 residue, 1 model selected > select /A-F,H,M,Q:58-78/G,I-J,L,N-O:52-78/K:53-78/P:51-78 2439 atoms, 2473 bonds, 321 residues, 1 model selected > ui tool show ""Side View"" > select /A,H,M,Q:58-312/F:58-320/G,J-L,P/I:52-324/N:52-326/O:52-325 27379 atoms, 28004 bonds, 3466 residues, 1 model selected > select clear > style stick Changed 43239 atom styles > style sphere Changed 43239 atom styles > style ball Changed 43239 atom styles > color byhetero > color bychain > rainbow > coulombic The following heavy (non-hydrogen) atoms are missing, which may result in inaccurate electrostatics: /Y LEU 776 OXT /Z LEU 776 OXT /N ILE 326 OXT /X LEU 776 OXT Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for 3iyu_A SES surface #1.2: minimum, -21.87, mean -4.32, maximum 7.32 Coulombic values for 3iyu_F SES surface #1.3: minimum, -24.05, mean -3.70, maximum 10.21 Coulombic values for 3iyu_G SES surface #1.4: minimum, -24.38, mean -3.77, maximum 7.52 Coulombic values for 3iyu_H SES surface #1.5: minimum, -28.51, mean -4.38, maximum 6.99 Coulombic values for 3iyu_I SES surface #1.6: minimum, -22.38, mean -3.74, maximum 11.07 Coulombic values for 3iyu_J SES surface #1.7: minimum, -22.17, mean -3.37, maximum 8.36 Coulombic values for 3iyu_K SES surface #1.8: minimum, -22.12, mean -3.67, maximum 10.67 Coulombic values for 3iyu_L SES surface #1.9: minimum, -28.42, mean -3.70, maximum 8.68 Coulombic values for 3iyu_M SES surface #1.10: minimum, -27.92, mean -4.45, maximum 6.35 Coulombic values for 3iyu_N SES surface #1.11: minimum, -23.43, mean -3.77, maximum 7.68 Coulombic values for 3iyu_O SES surface #1.12: minimum, -25.92, mean -3.40, maximum 7.46 Coulombic values for 3iyu_P SES surface #1.13: minimum, -22.42, mean -3.41, maximum 8.85 Coulombic values for 3iyu_Q SES surface #1.14: minimum, -23.89, mean -4.58, maximum 7.31 Coulombic values for 3iyu_X SES surface #1.15: minimum, -19.60, mean -1.92, maximum 12.57 Coulombic values for 3iyu_Y SES surface #1.16: minimum, -18.05, mean -1.92, maximum 12.75 Coulombic values for 3iyu_Z SES surface #1.17: minimum, -18.42, mean -1.44, maximum 13.24 To also show corresponding color key, enter the above coulombic command and add key true Alignment identifier is 1 Alignment identifier is 2 > interfaces ~solvent 25 buried areas: Y X 4731, Y Z 3104, X Z 1734, J K 1367, N L 1356, G F 1329, L M 1317, F H 1312, P Q 1309, O Q 1305, N M 1305, I K 1295, J L 1294, G H 1273, O P 1273, N P 1253, O G 1219, I J 1077, A Q 843, Y G 592, X N 558, Z F 434, Y F 344, X L 332, X P 331 Alignment identifier is 3 Alignment identifier is 4 > ~hbonds > hbonds reveal true 3733 hydrogen bonds found > mlp Map values for surface ""3iyu_A SES surface"": minimum -28.06, mean -5.043, maximum 25.73 Map values for surface ""3iyu_F SES surface"": minimum -28.12, mean -5.356, maximum 25.65 Map values for surface ""3iyu_G SES surface"": minimum -28.5, mean -4.82, maximum 25.25 Map values for surface ""3iyu_H SES surface"": minimum -30.53, mean -5.043, maximum 24.61 Map values for surface ""3iyu_I SES surface"": minimum -28.87, mean -4.658, maximum 25.39 Map values for surface ""3iyu_J SES surface"": minimum -28.9, mean -4.896, maximum 25.63 Map values for surface ""3iyu_K SES surface"": minimum -28.4, mean -5.031, maximum 24.76 Map values for surface ""3iyu_L SES surface"": minimum -27.69, mean -4.935, maximum 27.29 Map values for surface ""3iyu_M SES surface"": minimum -28.06, mean -5.318, maximum 25.36 Map values for surface ""3iyu_N SES surface"": minimum -29.15, mean -5.026, maximum 25.35 Map values for surface ""3iyu_O SES surface"": minimum -29.31, mean -4.699, maximum 25.72 Map values for surface ""3iyu_P SES surface"": minimum -27.78, mean -4.937, maximum 26.36 Map values for surface ""3iyu_Q SES surface"": minimum -28.82, mean -4.99, maximum 25.95 Map values for surface ""3iyu_X SES surface"": minimum -28.38, mean -5.377, maximum 24.71 Map values for surface ""3iyu_Y SES surface"": minimum -28.65, mean -5.228, maximum 25.36 Map values for surface ""3iyu_Z SES surface"": minimum -28, mean -4.98, maximum 26.18 To also show corresponding color key, enter the above mlp command and add key true > coulombic Coulombic values for 3iyu_A SES surface #1.2: minimum, -21.87, mean -4.32, maximum 7.32 Coulombic values for 3iyu_F SES surface #1.3: minimum, -24.05, mean -3.70, maximum 10.21 Coulombic values for 3iyu_G SES surface #1.4: minimum, -24.38, mean -3.77, maximum 7.52 Coulombic values for 3iyu_H SES surface #1.5: minimum, -28.51, mean -4.38, maximum 6.99 Coulombic values for 3iyu_I SES surface #1.6: minimum, -22.38, mean -3.74, maximum 11.07 Coulombic values for 3iyu_J SES surface #1.7: minimum, -22.17, mean -3.37, maximum 8.36 Coulombic values for 3iyu_K SES surface #1.8: minimum, -22.12, mean -3.67, maximum 10.67 Coulombic values for 3iyu_L SES surface #1.9: minimum, -28.42, mean -3.70, maximum 8.68 Coulombic values for 3iyu_M SES surface #1.10: minimum, -27.92, mean -4.45, maximum 6.35 Coulombic values for 3iyu_N SES surface #1.11: minimum, -23.43, mean -3.77, maximum 7.68 Coulombic values for 3iyu_O SES surface #1.12: minimum, -25.92, mean -3.40, maximum 7.46 Coulombic values for 3iyu_P SES surface #1.13: minimum, -22.42, mean -3.41, maximum 8.85 Coulombic values for 3iyu_Q SES surface #1.14: minimum, -23.89, mean -4.58, maximum 7.31 Coulombic values for 3iyu_X SES surface #1.15: minimum, -19.60, mean -1.92, maximum 12.57 Coulombic values for 3iyu_Y SES surface #1.16: minimum, -18.05, mean -1.92, maximum 12.75 Coulombic values for 3iyu_Z SES surface #1.17: minimum, -18.42, mean -1.44, maximum 13.24 To also show corresponding color key, enter the above coulombic command and add key true > color bypolymer > color bychain > open https://www.rbvi.ucsf.edu/chimerax/tutorials.html Opened https://www.rbvi.ucsf.edu/chimerax/tutorials.html Cell requested for row 0 is out of bounds for table with 0 rows! Resizing table model. > close session ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.9 (2024-12-11) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 89.3 OpenGL renderer: Apple M2 OpenGL vendor: Apple Python: 3.11.4 Locale: UTF-8 Qt version: PyQt6 6.7.1, Qt 6.7.1 Qt runtime version: 6.7.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Air Model Identifier: Mac14,2 Model Number: Z160000VFY/A Chip: Apple M2 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 11881.81.4 OS Loader Version: 11881.81.4 Software: System Software Overview: System Version: macOS 15.3.1 (24D70) Kernel Version: Darwin 24.3.0 Time since boot: 1 hora y 24 minutos Graphics/Displays: Apple M2: Chipset Model: Apple M2 Type: GPU Bus: Built-In Total Number of Cores: 8 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: 1.0.0 anyio: 4.7.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.0 auditwheel: 6.1.0 babel: 2.16.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 3.0.0 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.4.post1 charset-normalizer: 3.4.0 ChimeraX-AddCharge: 1.5.18 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.16.1 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.58.8 ChimeraX-AtomicLibrary: 14.1.11 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 3.0.0 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.4.0 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: 2.3 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: 1.9 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.4 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2.6 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: 1.4.1 ChimeraX-Hbonds: 2.5 ChimeraX-Help: 1.3 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.3 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-KVFinder: 1.2.1 ChimeraX-Label: 1.1.14 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.2 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.3 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: 2.1.6 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.2 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.2 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.18 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-MutationScores: 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: 1.14 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.6 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: 1.1.2 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.2 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.3.1 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: 3.5.6 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.14 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.2.0 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-SimilarStructures: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.18.1 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: 1.2.3 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.41 ChimeraX-Umap: 1.0 ChimeraX-uniprot: 2.3.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.4 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: 1.3.1 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.9 decorator: 5.1.1 docutils: 0.21.2 executing: 2.1.0 filelock: 3.15.4 fonttools: 4.55.3 funcparserlib: 2.0.0a0 glfw: 2.8.0 grako: 3.16.5 h11: 0.14.0 h5py: 3.12.1 html2text: 2024.2.26 httpcore: 1.0.7 httpx: 0.28.1 idna: 3.10 ihm: 1.3 imagecodecs: 2024.6.1 imagesize: 1.4.1 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.5 jedi: 0.19.1 Jinja2: 3.1.4 jupyter_client: 8.6.2 jupyter_core: 5.7.2 jupyterlab_widgets: 3.0.13 kiwisolver: 1.4.7 line_profiler: 4.1.3 lxml: 5.2.2 lz4: 4.3.3 MarkupSafe: 3.0.2 matplotlib: 3.9.2 matplotlib-inline: 0.1.7 msgpack: 1.0.8 ndindex: 1.9.2 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.2 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: 10.4.0 pip: 24.2 pkginfo: 1.11.1 platformdirs: 4.3.6 prompt_toolkit: 3.0.48 psutil: 6.0.0 ptyprocess: 0.7.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pyelftools: 0.31 Pygments: 2.18.0 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.2.0 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.7.1 PyQt6-Qt6: 6.7.3 PyQt6-WebEngine-commercial: 6.7.0 PyQt6-WebEngine-Qt6: 6.7.3 PyQt6-WebEngineSubwheel-Qt6: 6.7.3 PyQt6_sip: 13.8.0 python-dateutil: 2.9.0.post0 pytz: 2024.2 pyzmq: 26.2.0 qtconsole: 5.5.2 QtPy: 2.4.2 qtshim: 1.0 RandomWords: 0.4.0 requests: 2.32.3 scipy: 1.14.0 setuptools: 72.1.0 sfftk-rw: 0.8.1 six: 1.16.0 sniffio: 1.3.1 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.6 Sphinx: 8.0.2 sphinx-autodoc-typehints: 2.2.3 sphinxcontrib-applehelp: 2.0.0 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 2.0.0 sphinxcontrib-htmlhelp: 2.1.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 2.0.0 sphinxcontrib-serializinghtml: 2.0.0 stack-data: 0.6.3 superqt: 0.6.3 tables: 3.10.1 tcia_utils: 1.5.1 tifffile: 2024.7.24 tinyarray: 1.2.4 tornado: 6.4.2 traitlets: 5.14.3 typing_extensions: 4.12.2 tzdata: 2024.2 urllib3: 2.2.3 wcwidth: 0.2.13 webcolors: 24.6.0 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.13 }}} " defect closed normal Window Toolkit can't reproduce Tom Goddard all ChimeraX