id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 18636 Crash deleting a QDockWidget involving QWindowContainer::parentWasChanged chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-13.7.6-arm64-arm-64bit ChimeraX Version: 1.11.dev202508050120 (2025-08-05 01:20:22 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 0x00000001e5d16140 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 368 in event_loop File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1058 in init File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1223 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.surface._surface, chimerax.map._map, psutil._psutil_osx, psutil._psutil_posix, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, PIL._imaging, PIL._imagingmath, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets (total: 53) {""app_name"":""ChimeraX"",""timestamp"":""2025-08-27 11:58:59.00 +0900"",""app_version"":""1.11.0"",""slice_uuid"":""9cf8124a-d876-34ad-b7ee-c011183ebc15"",""build_version"":""1.11.0.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":0,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 13.7.6 (22H625)"",""roots_installed"":0,""name"":""ChimeraX"",""incident_id"":""3FB11701-5948-4EE9-8DBA-C8EB5AC4BADD""} { ""uptime"" : 680000, ""procRole"" : ""Foreground"", ""version"" : 2, ""userID"" : 501, ""deployVersion"" : 210, ""modelCode"" : ""MacBookPro18,3"", ""coalitionID"" : 29674, ""osVersion"" : { ""train"" : ""macOS 13.7.6"", ""build"" : ""22H625"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2025-08-27 11:58:58.9185 +0900"", ""incident"" : ""3FB11701-5948-4EE9-8DBA-C8EB5AC4BADD"", ""pid"" : 95382, ""translated"" : false, ""cpuType"" : ""ARM-64"", ""roots_installed"" : 0, ""bug_type"" : ""309"", ""procLaunch"" : ""2025-08-27 11:07:27.2068 +0900"", ""procStartAbsTime"" : 16453697254654, ""procExitAbsTime"" : 16527947265952, ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.11.0"",""CFBundleVersion"":""1.11.0.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""8AE4D722-03D5-56AC-94FD-4E0A154B1F9F"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""7A9DCD78-69FC-17A0-A468-9D4666918DF9"", ""codeSigningID"" : ""edu.ucsf.cgl.ChimeraX"", ""codeSigningTeamID"" : ""LWV8X224YF"", ""codeSigningFlags"" : 570491649, ""codeSigningValidationCategory"" : 6, ""codeSigningTrustLevel"" : 0, ""wakeTime"" : 3342, ""sleepWakeUUID"" : ""6E47CF51-2710-4CCA-80DC-DAC0616B9F18"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x8 is not in any region. 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2012K 1 \n__TEXT 896.4M 791 \ndyld private memory 320K 4 \nmapped file 564.8M 97 \nshared memory 3184K 26 \n=========== ======= ======= \nTOTAL 5.6G 4813 \nTOTAL, minus reserved VM space 4.6G 4813 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""e4067d1f6666e4fa886e359a9603beb22d43533a"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""62c73fd17cce0d1b0bcb8a02"", ""factorPackIds"" : { ""SIRI_DIALOG_ASSETS"" : ""651482b98d79034dd899e383"" }, ""deploymentId"" : 240000212 }, { ""rolloutId"" : ""61675b89201f677a9a4cbd65"", ""factorPackIds"" : { ""HEALTH_FEATURE_AVAILABILITY"" : ""65a855f5f087695cfac03d1f"" }, ""deploymentId"" : 240000222 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.11.dev202508050120 (2025-08-05) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/gyoon9/Documents/Final structures/GTR1_pOHB_6.0_1237.pdb"" Chain information for GTR1_pOHB_6.0_1237.pdb #1 --- Chain | Description B | No description available > open ""/Users/gyoon9/Documents/Final structures/GTR1_I3M_6.0_1856.pdb"" Chain information for GTR1_I3M_6.0_1856.pdb #2 --- Chain | Description B | No description available > open ""/Users/gyoon9/Documents/Final structures/GTR1_4MTB_6.0_1855.pdb"" Chain information for GTR1_4MTB_6.0_1855.pdb #3 --- Chain | Description B | No description available > matchmaker #1 to #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 GTR1_I3M_6.0_1856.pdb, chain B (#2) with GTR1_pOHB_6.0_1237.pdb, chain B (#1), sequence alignment score = 2790.8 RMSD between 537 pruned atom pairs is 0.377 angstroms; (across all 545 pairs: 0.783) > matchmaker #3 to #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 GTR1_I3M_6.0_1856.pdb, chain B (#2) with GTR1_4MTB_6.0_1855.pdb, chain B (#3), sequence alignment score = 2775 RMSD between 538 pruned atom pairs is 0.380 angstroms; (across all 545 pairs: 0.772) > hide :2-70 cartoons > hide :2-700 cartoons > hide :2-700 cartoons,atoms > hide H > open /Users/gyoon9/Documents/Phenix/GTR1/pOHB_IF/J1374-coot-1.pdb Chain information for J1374-coot-1.pdb #4 --- Chain | Description B | No description available > close #1 > matchmaker #4 to 2# Invalid ""to"" argument: invalid atoms specifier > matchmaker #4 to #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 GTR1_I3M_6.0_1856.pdb, chain B (#2) with J1374-coot-1.pdb, chain B (#4), sequence alignment score = 2777 RMSD between 538 pruned atom pairs is 0.388 angstroms; (across all 545 pairs: 0.777) > hide H > hide :2-700 cartoons,atoms > lighting flat > graphics silhouettes false > graphics silhouettes true > lighting soft > lighting full > lighting flat > color #2:1 #89D973 > color #4:1 #28331A > color #4:701 #28331A > color #4:701 #5C7346 > color #3:1 #4f79cb > color byhetero a Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels', 'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword > color byhetero > show :196, 513 > show :79,196, 513 > hide H > select :2-700 13577 atoms, 13897 bonds, 1652 residues, 3 models selected > transparency sel 60 a Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels', 'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword > transparency sel 60 atoms > select subtract Nothing selected > select add #2 4567 atoms, 4682 bonds, 548 residues, 1 model selected > preset ""molecular surfaces"" ""ghostly white"" Using preset: Molecular Surfaces / Ghostly White Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > hide surfaces > select subtract #2 1 model selected > color #2 #98f088ff > color #2 #98f08878 > undo > color :2-280 #4f79cb > color :281-700 #a0dbe8 > color byhetero > select :79,196,513@n,o,c 27 atoms, 9 bonds, 9 residues, 3 models selected > select :79,196,513@n,o,c,ca 36 atoms, 27 bonds, 9 residues, 3 models selected > hide sel > show :65-97,175-206,499-527 cartoons > cartoon style modeHelix default arrows true arrowsHelix false arrowScale 1 > width 1.0 thickness 0.3 sides 12 divisions 20 > show :79,196,513@n,o,c,ca > select :79,196,513@n,o,c, Expected an objects specifier or a keyword > select :79,196,513@n,o,c 27 atoms, 9 bonds, 9 residues, 3 models selected > select add #2 4585 atoms, 4688 bonds, 554 residues, 6 models selected > select add #3 9142 atoms, 9346 bonds, 1113 residues, 6 models selected > select add #4 13699 atoms, 14021 bonds, 1656 residues, 6 models selected > select subtract #4 9133 atoms, 9343 bonds, 1110 residues, 5 models selected > select subtract #3 4567 atoms, 4682 bonds, 548 residues, 3 models selected > select subtract #2 1 model selected > transparency 70 cartoons > hide :91-97 > hide :92-97 cartoons > show :359-393 cartoons > show :530-560 > show :530-560 cartoons > hide :530-560 atoms > hide :359-393 cartoons > show :359-393 cartoons > ui tool show ""Side View"" > save /Users/gyoon9/Desktop/image55.png supersample 3 > open ""/Users/gyoon9/Documents/Final structures/GTR1_pOHB_6.0_1374.mrc"" Opened GTR1_pOHB_6.0_1374.mrc as #1, grid size 240,240,240, pixel 0.901, shown at level 0.0967, step 1, values float32 > open ""/Users/gyoon9/Documents/Final structures/GTR1_I3M_6.0_1856.mrc"" Opened GTR1_I3M_6.0_1856.mrc as #5, grid size 320,320,320, pixel 0.705, shown at level 0.0525, step 2, values float32 > open ""/Users/gyoon9/Documents/Final structures/GTR1_4MTB_6.0_1855.mrc"" Opened GTR1_4MTB_6.0_1855.mrc as #6, grid size 240,240,240, pixel 0.901, shown at level 0.0682, step 1, values float32 > volume #1 level 0.4737 > volume #5 level 0.1444 > volume #6 level 0.2357 > hide #!1 models > hide #!2 models > hide #!3 models > hide #!4 models > hide #!5 models > hide #!6 models > show #!1 models > show #!4 models > select add #4 4566 atoms, 4678 bonds, 546 residues, 1 model selected > ui mousemode right ""rotate selected models"" > view matrix models > #4,-0.37076,0.77006,0.51918,5.2657,-0.39599,0.37459,-0.83838,212.75,-0.84008,-0.51642,0.16605,235.88 > view matrix models > #4,0.96867,0.24833,0.004466,-22.842,-0.24656,0.96363,-0.10307,44.89,-0.029898,0.098736,0.99466,-18.002 > view matrix models > #4,0.93675,0.24748,0.24748,-47.224,-0.22247,0.96692,-0.12482,44.384,-0.27018,0.061864,0.96082,16.376 > view matrix models > #4,0.57169,0.52167,0.63327,-82.807,-0.1486,0.82491,-0.54538,100.83,-0.8069,0.21769,0.54912,104.81 > show cartoons > view matrix models > #4,0.98542,0.029318,0.16762,-18.171,0.0010469,0.98398,-0.17826,25.325,-0.17016,0.17583,0.9696,-5.6697 > ui mousemode right ""translate selected models"" > view matrix models > #4,0.98542,0.029318,0.16762,-17.692,0.0010469,0.98398,-0.17826,19.417,-0.17016,0.17583,0.9696,2.8606 > fitmap #4 inMap #1 Fit molecule J1374-coot-1.pdb (#4) to map GTR1_pOHB_6.0_1374.mrc (#1) using 4566 atoms average map value = 0.8043, steps = 120 shifted from previous position = 3.34 rotated from previous position = 14.2 degrees atoms outside contour = 1404, contour level = 0.47373 Position of J1374-coot-1.pdb (#4) relative to GTR1_pOHB_6.0_1374.mrc (#1) coordinates: Matrix rotation and translation 0.99999996 -0.00011119 0.00025660 -0.01075420 0.00011127 0.99999994 -0.00032196 0.01170214 -0.00025656 0.00032199 0.99999992 -0.00669067 Axis 0.75498411 0.60164358 0.26081409 Axis point 0.00000000 18.50272888 41.61955601 Rotation angle (degrees) 0.02443487 Shift along axis -0.00282375 > hide #!4 models > select subtract #4 1 model selected > hide #!1 models > show #!2 models > show #!5 models > volume #5 level 0.1683 > hide #!5 models > hide #!2 models > show #!3 models > show #!6 models > vop flip #6 Opened GTR1_4MTB_6.0_1855.mrc z flip as #7, grid size 240,240,240, pixel 0.901, shown at step 1, values float32 > volume #7 level 0.533 > select add #3 4566 atoms, 4661 bonds, 562 residues, 1 model selected > view matrix models > #3,0.99876,-0.020469,0.045408,1.9639,-0.0028561,0.88662,0.46249,-37.945,-0.049726,-0.46205,0.88546,73.496 > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.97756,-0.18766,-0.095748,37.22,0.19279,0.9801,0.047369,-27.615,0.084953,-0.064765,0.99428,3.5003 > view matrix models > #3,0.98183,-0.18145,-0.055541,31.975,0.18438,0.98141,0.05326,-27.438,0.044844,-0.062534,0.99703,7.3706 > ui mousemode right ""translate selected models"" > view matrix models > #3,0.98183,-0.18145,-0.055541,27.74,0.18438,0.98141,0.05326,-24.333,0.044844,-0.062534,0.99703,3.3331 > fitmap #3 inMap #7 Fit molecule GTR1_4MTB_6.0_1855.pdb (#3) to map GTR1_4MTB_6.0_1855.mrc z flip (#7) using 4566 atoms average map value = 0.3852, steps = 88 shifted from previous position = 1.32 rotated from previous position = 11.4 degrees atoms outside contour = 3203, contour level = 0.53304 Position of GTR1_4MTB_6.0_1855.pdb (#3) relative to GTR1_4MTB_6.0_1855.mrc z flip (#7) coordinates: Matrix rotation and translation 1.00000000 -0.00002406 0.00002923 -0.00548832 0.00002406 1.00000000 0.00005577 -0.01505446 -0.00002923 -0.00005577 1.00000000 0.02147230 Axis -0.82736894 0.43368499 0.35690051 Axis point 0.00000000 348.69771816 314.09231327 Rotation angle (degrees) 0.00386198 Shift along axis 0.00567545 > select subtract #3 1 model selected > hide #!3 models > hide #!7 models > hide :1-700 atoms,cartoons > show #!1 models > show #!4 models > volume #1 level 2.028 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.11.dev202508050120 (2025-08-05) © 2016-2025 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 Pro OpenGL vendor: Apple Python: 3.11.9 Locale: UTF-8 Qt version: PyQt6 6.9.1, Qt 6.9.0 Qt runtime version: 6.9.1 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro18,3 Model Number: Z15G004X2KH/A Chip: Apple M1 Pro Total Number of Cores: 8 (6 performance and 2 efficiency) Memory: 32 GB System Firmware Version: 11881.121.1 OS Loader Version: 8422.141.2.700.1 Software: System Software Overview: System Version: macOS 13.7.6 (22H625) Kernel Version: Darwin 22.6.0 Time since boot: 16 days, 35 minutes Graphics/Displays: Apple M1 Pro: Chipset Model: Apple M1 Pro Type: GPU Bus: Built-In Total Number of Cores: 14 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: LG ULTRAWIDE: Resolution: 2560 x 1080 (UW-UXGA - Ultra Wide - Ultra Extended Graphics Array) UI Looks like: 2560 x 1080 @ 60.00Hz Main Display: Yes Mirror: Off Online: Yes Rotation: Supported Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.0 babel: 2.17.0 beautifulsoup4: 4.13.4 blockdiag: 3.0.0 blosc2: 3.6.1 build: 1.2.2.post1 certifi: 2025.7.14 cftime: 1.6.4.post1 charset-normalizer: 3.4.2 ChimeraX-AddCharge: 1.5.19 ChimeraX-AddH: 2.2.7 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 3.0 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Aniso: 1.3.2 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.60.10 ChimeraX-AtomicLibrary: 14.1.21 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.3 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 3.0.0 ChimeraX-Boltz: 1.1 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.2 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.5.1 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.5 ChimeraX-ChemGroup: 2.0.2 ChimeraX-Clashes: 2.3 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.8 ChimeraX-CommandLine: 1.3.0 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.11.dev202508050120 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.5 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.4 ChimeraX-Dicom: 1.2.7 ChimeraX-DistMonitor: 1.4.2 ChimeraX-DockPrep: 1.1.4 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: 2.5.3 ChimeraX-Help: 1.3 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.4 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-KVFinder: 1.7.1 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-MatchAlign: 1.0 ChimeraX-MatchMaker: 2.2.2 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.15 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-Minimize: 1.2 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.16 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.22 ChimeraX-ModelPanel: 1.5.1 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: 1.0.1 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: 1.15.1 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.10 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: 1.1.3 ChimeraX-ProfileGrids: 1.1.4 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.4 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: 1.5.2 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.3 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.5.7 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.17.2 ChimeraX-Shape: 1.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.2.1 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: 1.19.1 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: 2.5.2 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: 1.47 ChimeraX-Umap: 1.0 ChimeraX-uniprot: 2.3.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDock: 1.2 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: 1.1.5 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.3 contourpy: 1.3.3 coverage: 7.10.2 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.1.2 debugpy: 1.8.15 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.0 filelock: 3.18.0 fonttools: 4.59.0 funcparserlib: 2.0.0a0 glfw: 2.9.0 grako: 3.16.5 h5py: 3.14.0 html2text: 2024.2.26 idna: 3.10 ihm: 2.2 imagecodecs: 2024.6.1 imagesize: 1.4.1 iniconfig: 2.1.0 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.7 jedi: 0.19.1 Jinja2: 3.1.6 jupyter_client: 8.6.3 jupyter_core: 5.8.1 jupyterlab_widgets: 3.0.15 kiwisolver: 1.4.8 line_profiler: 5.0.0 lxml: 5.3.1 lz4: 4.3.2 Markdown: 3.8.2 MarkupSafe: 3.0.2 matplotlib: 3.10.1 matplotlib-inline: 0.1.7 msgpack: 1.1.0 ndindex: 1.10.0 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.11.0 numpy: 1.26.4 OpenMM: 8.2.0 openvr: 1.26.701 packaging: 24.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pexpect: 4.9.0 pickleshare: 0.7.5 pillow: 10.4.0 pip: 25.2 pkginfo: 1.11.1 platformdirs: 4.3.8 pluggy: 1.6.0 prompt_toolkit: 3.0.51 psutil: 7.0.0 ptyprocess: 0.7.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 Pygments: 2.18.0 pynmrstar: 3.3.5 pynrrd: 1.0.0 PyOpenGL: 3.1.9 PyOpenGL-accelerate: 3.1.9 pyopenxr: 1.1.4501 pyparsing: 3.2.3 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.9.1 PyQt6-Qt6: 6.9.1 PyQt6-WebEngine-commercial: 6.9.0 PyQt6-WebEngine-Qt6: 6.9.1 PyQt6_sip: 13.10.2 pytest: 8.4.1 pytest-cov: 6.2.1 python-dateutil: 2.9.0.post0 pytz: 2025.2 pyzmq: 27.0.1 qtconsole: 5.5.2 QtPy: 2.4.3 qtshim: 1.1 RandomWords: 0.4.0 requests: 2.32.4 roman-numerals-py: 3.1.0 scipy: 1.14.0 setuptools: 80.9.0 sfftk-rw: 0.8.1 six: 1.17.0 snowballstemmer: 3.0.1 sortedcontainers: 2.4.0 soupsieve: 2.7 Sphinx: 8.2.3 sphinx-autodoc-typehints: 3.1.0 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: 0.7.5 tables: 3.10.2 tcia_utils: 1.5.1 tifffile: 2025.3.13 tinyarray: 1.2.5 tornado: 6.5.1 traitlets: 5.14.3 typing_extensions: 4.14.1 tzdata: 2025.2 urllib3: 2.5.0 wcwidth: 0.2.13 webcolors: 24.11.1 wheel: 0.45.1 wheel-filename: 1.4.2 widgetsnbextension: 4.0.14 }}} " defect assigned normal Window Toolkit chimera-programmers all ChimeraX