id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 15972 Crash on Mac waking from sleep chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.0-x86_64-i386-64bit ChimeraX Version: 1.8 (2024-06-10 23:15:52 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 0x00007ff84a3c6680 (most recent call first): File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 315 in event_loop File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1003 in init File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1166 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.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, chimerax.pdb_lib._load_libs, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, psutil._psutil_osx, psutil._psutil_posix, PIL._imagingmath, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif (total: 53) {""app_name"":""ChimeraX"",""timestamp"":""2024-09-18 20:31:17.00 -0700"",""app_version"":""1.8.0"",""slice_uuid"":""194a3167-3db5-3029-8d22-1d742b826bb9"",""build_version"":""1.8.0.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":0,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 15.0 (24A335)"",""roots_installed"":0,""name"":""ChimeraX"",""incident_id"":""128E3B08-38BE-4CAB-8A3C-4A1A1E36589A""} { ""uptime"" : 15000, ""procRole"" : ""Foreground"", ""version"" : 2, ""userID"" : 501, ""deployVersion"" : 210, ""modelCode"" : ""MacBookPro16,3"", ""coalitionID"" : 4041, ""osVersion"" : { ""train"" : ""macOS 15.0"", ""build"" : ""24A335"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2024-09-18 20:31:00.4743 -0700"", ""codeSigningMonitor"" : 0, ""incident"" : ""128E3B08-38BE-4CAB-8A3C-4A1A1E36589A"", ""pid"" : 4416, ""cpuType"" : ""X86-64"", ""roots_installed"" : 0, ""bug_type"" : ""309"", ""procLaunch"" : ""2024-09-18 19:44:16.8794 -0700"", ""procStartAbsTime"" : 12804627226072, ""procExitAbsTime"" : 15608181363271, ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.8.0"",""CFBundleVersion"":""1.8.0.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""DED4BD1E-B392-5D25-B256-86E56CD2C686"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""586409D4-F6D0-0B06-6CD4-3641E818D7B4"", ""lowPowerMode"" : 1, ""codeSigningID"" : ""edu.ucsf.cgl.ChimeraX"", ""codeSigningTeamID"" : ""LWV8X224YF"", ""codeSigningFlags"" : 570491649, ""codeSigningValidationCategory"" : 6, ""codeSigningTrustLevel"" : 4294967295, ""bootSessionUUID"" : ""AF665AEA-ACC5-43B5-8677-60987DFCF7DB"", ""wakeTime"" : 11072, ""bridgeVersion"" : {""build"":""22P353"",""train"":""9.0""}, ""sleepWakeUUID"" : ""BF722095-2872-4F36-8B95-CA2A55ABC03F"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0 is not in any region. 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""sharedCache"" : { ""base"" : 140703248756736, ""size"" : 25769803776, ""uuid"" : ""78aaaa52-08a2-311d-a934-9c187f804833"" }, ""vmSummary"" : ""ReadOnly portion of Libraries: Total=1.3G resident=0K(0%) swapped_out_or_unallocated=1.3G(100%)\nWritable regions: Total=2.0G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=2.0G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 384K 3 \nActivity Tracing 256K 1 \nCG backing stores 3520K 1 \nCG image 292K 30 \nCG raster data 8K 1 \nColorSync 256K 31 \nCoreAnimation 1008K 152 \nCoreGraphics 16K 3 \nCoreUI image data 5168K 60 \nFoundation 36K 2 \nIOKit 15.5M 2 \nKernel Alloc Once 1364K 4 \nMALLOC 1.4G 1014 \nMALLOC guard page 48K 12 \nMALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)\nMach message 24K 5 \nOpenGL GLSL 384K 4 \nSTACK GUARD 188K 47 \nStack 159.4M 48 \nStack Guard 56.0M 1 \nVM_ALLOCATE 285.2M 283 \nVM_ALLOCATE (reserved) 32.0M 1 reserved VM address space (unallocated)\n__CTF 824 1 \n__DATA 30.8M 836 \n__DATA_CONST 79.6M 736 \n__DATA_DIRTY 1805K 249 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__LINKEDIT 211.9M 147 \n__OBJC_RO 76.1M 1 \n__OBJC_RW 2354K 2 \n__TEXT 1.1G 856 \n__TPRO_CONST 272K 2 \ndyld private memory 20K 2 \nmapped file 257.8M 70 \nowned unmapped memory 114.3M 1 \nshared memory 3640K 33 \n=========== ======= ======= \nTOTAL 3.8G 4644 \nTOTAL, minus reserved VM space 3.8G 4644 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""d0a659064e7b55b5b674a6012dcf4d836f6275b3"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""5fb4245a1bbfe8005e33a1e1"", ""factorPackIds"" : { }, ""deploymentId"" : 240000021 }, { ""rolloutId"" : ""642da32dea3b2418c750f848"", ""factorPackIds"" : { }, ""deploymentId"" : 240000004 } ], ""experiments"" : [ { ""treatmentId"" : ""c47ab4cc-c9c3-4b5d-a87c-e2433ce02597"", ""experimentId"" : ""6639bc6ba73d460582162323"", ""deploymentId"" : 400000006 }, { ""treatmentId"" : ""45f4e2a5-551b-4bc2-a2dc-19c244dda8f8"", ""experimentId"" : ""6643969b3099cf28e049862f"", ""deploymentId"" : 400000007 } ] } } ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet > graphics silhouettes true width 1 UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/petra/Downloads/cryosparc_P14_J254_008_volume_map_sharp.mrc Opened cryosparc_P14_J254_008_volume_map_sharp.mrc as #1, grid size 320,320,320, pixel 0.853, shown at level 0.0507, step 2, values float32 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > surface dust #1 size 8.53 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #1 step 1 > lighting soft > volume #1 level 0.1539 > volume #1 level 0.06281 > open /Users/petra/Downloads/cryosparc_P14_J254_008_volume_map.mrc Opened cryosparc_P14_J254_008_volume_map.mrc as #2, grid size 320,320,320, pixel 0.853, shown at level 0.0126, step 2, values float32 > hide #!1 models > lighting soft The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #2 step 1 > volume #2 color #d6d6d6 > volume #2 level 0.05983 > volume #2 level 0.02313 > volume #2 level 0.03886 > open /Users/petra/Downloads/cryosparc_P14_J255_010_volume_map_sharp.mrc Opened cryosparc_P14_J255_010_volume_map_sharp.mrc as #3, grid size 320,320,320, pixel 0.853, shown at level 0.0477, step 2, values float32 > open /Users/petra/Downloads/cryosparc_P14_J255_010_volume_map.mrc Opened cryosparc_P14_J255_010_volume_map.mrc as #4, grid size 320,320,320, pixel 0.853, shown at level 0.0075, step 2, values float32 > hide #!2 models > surface dust #3 size 8.53 > surface dust #4 size 8.53 > hide #!4 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #3 step 1 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > volume #4 step 1 > show #!4 models > hide #!3 models > volume #4 level 0.01449 > volume #4 level 0.07598 > hide #!4 models > show #!3 models > volume #3 level 0.139 > volume #3 level 0.3503 > open /Users/petra/Desktop/GiGet345_Phenix/GiGet3_D53N_ATP_Dimer.pdb format > pdb Chain information for GiGet3_D53N_ATP_Dimer.pdb #5 --- Chain | Description A E | No description available 10 atoms have alternate locations. Control/examine alternate locations with Altloc Explorer [start tool...] or the altlocs command. > select add #3 2 models selected > select subtract #3 Nothing selected > select add #5 5512 atoms, 5260 bonds, 2 pseudobonds, 1010 residues, 2 models selected > ui mousemode right ""translate selected models"" > view matrix models #5,1,0,0,32.376,0,1,0,46.759,0,0,1,-16.709 > view matrix models #5,1,0,0,103.01,0,1,0,93.061,0,0,1,-36.577 > view matrix models #5,1,0,0,79.846,0,1,0,137.62,0,0,1,102.06 > view matrix models #5,1,0,0,109.39,0,1,0,144.95,0,0,1,111.05 > ui mousemode right ""rotate selected models"" > view matrix models > #5,0.092749,0.3451,-0.93397,156.96,-0.85399,0.50987,0.10359,168.43,0.51196,0.78799,0.342,109.9 > ui mousemode right ""translate selected models"" > view matrix models > #5,0.092749,0.3451,-0.93397,153.99,-0.85399,0.50987,0.10359,160.52,0.51196,0.78799,0.342,111.71 > fitmap #5 inMap #3 Fit molecule GiGet3_D53N_ATP_Dimer.pdb (#5) to map cryosparc_P14_J255_010_volume_map_sharp.mrc (#3) using 5512 atoms average map value = 0.0871, steps = 260 shifted from previous position = 3.23 rotated from previous position = 18.9 degrees atoms outside contour = 4751, contour level = 0.35026 Position of GiGet3_D53N_ATP_Dimer.pdb (#5) relative to cryosparc_P14_J255_010_volume_map_sharp.mrc (#3) coordinates: Matrix rotation and translation 0.10752786 0.56261189 -0.81969850 150.09390995 -0.95108504 0.29838161 0.08003541 162.20765116 0.28961183 0.77099694 0.56717609 110.26856442 Axis 0.34551205 -0.55470539 -0.75691700 Axis point 161.97694126 -84.50260661 0.00000000 Rotation angle (degrees) 90.77106522 Shift along axis -121.58235607 > ui mousemode right ""rotate selected models"" > view matrix models > #5,-0.31296,0.7032,-0.6384,158.83,-0.90734,-0.022709,0.41979,153.52,0.2807,0.71063,0.64515,108.85 > ui mousemode right ""translate selected models"" > view matrix models > #5,-0.31296,0.7032,-0.6384,158.7,-0.90734,-0.022709,0.41979,150.54,0.2807,0.71063,0.64515,106.26 > fitmap #5 inMap #3 Fit molecule GiGet3_D53N_ATP_Dimer.pdb (#5) to map cryosparc_P14_J255_010_volume_map_sharp.mrc (#3) using 5512 atoms average map value = 0.07504, steps = 84 shifted from previous position = 2.12 rotated from previous position = 4.09 degrees atoms outside contour = 4760, contour level = 0.35026 Position of GiGet3_D53N_ATP_Dimer.pdb (#5) relative to cryosparc_P14_J255_010_volume_map_sharp.mrc (#3) coordinates: Matrix rotation and translation -0.25174635 0.71026401 -0.65738028 158.52712224 -0.91616431 0.04399334 0.39838116 149.44803154 0.31187615 0.70255935 0.63964337 105.31140746 Axis 0.15862309 -0.50544863 -0.84815116 Axis point 123.81219427 -36.19393108 0.00000000 Rotation angle (degrees) 106.50235884 Shift along axis -139.71223349 > view matrix models > #5,-0.25175,0.71026,-0.65738,155.61,-0.91616,0.043993,0.39838,155.08,0.31188,0.70256,0.63964,103.06 > fitmap #5 inMap #3 Fit molecule GiGet3_D53N_ATP_Dimer.pdb (#5) to map cryosparc_P14_J255_010_volume_map_sharp.mrc (#3) using 5512 atoms average map value = 0.407, steps = 184 shifted from previous position = 3.56 rotated from previous position = 17.7 degrees atoms outside contour = 2649, contour level = 0.35026 Position of GiGet3_D53N_ATP_Dimer.pdb (#5) relative to cryosparc_P14_J255_010_volume_map_sharp.mrc (#3) coordinates: Matrix rotation and translation 0.05286338 0.73886482 -0.67177694 149.23341544 -0.95576746 0.23234828 0.18034092 158.00952447 0.28933378 0.63252911 0.71846566 103.19478768 Axis 0.22609447 -0.48055617 -0.84731757 Axis point 144.96977363 -55.80986022 0.00000000 Rotation angle (degrees) 89.89465240 Shift along axis -129.63035742 > volume #3 color #b2ffff83 > volume #3 color #b2ffff82 > view matrix models > #5,0.052863,0.73886,-0.67178,146.93,-0.95577,0.23235,0.18034,157.76,0.28933,0.63253,0.71847,103.37 > undo > ui mousemode right translate > select subtract #5 Nothing selected > volume #3 level 0.139 > ui tool show ""Side View"" > view > show #!4 models > hide #!3 models > volume #4 color #b2b2ff83 > volume #4 color #b2b2ff82 > show #!2 models > hide #!2 models ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet > graphics silhouettes true width 1 UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 INTEL-23.0.21 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 645 OpenGL vendor: Intel Inc. 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 Pro Model Identifier: MacBookPro16,3 Processor Name: Quad-Core Intel Core i5 Processor Speed: 1.4 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 256 KB L3 Cache: 6 MB Hyper-Threading Technology: Enabled Memory: 8 GB System Firmware Version: 2069.0.0.0.0 (iBridge: 22.16.10353.0.0,0) OS Loader Version: 582~1023 Software: System Software Overview: System Version: macOS 15.0 (24A335) Kernel Version: Darwin 24.0.0 Time since boot: 4 hours, 45 minutes Graphics/Displays: Intel Iris Plus Graphics 645: Chipset Model: Intel Iris Plus Graphics 645 Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x3ea6 Revision ID: 0x0001 Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Framebuffer Depth: 24-Bit Color (ARGB8888) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: No 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: 1.8 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 closed normal Window Toolkit duplicate all ChimeraX