id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 15909 Graphics crash, macOS 13.6.1, Intel Iris Plus Graphics chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-13.6.1-x86_64-i386-64bit ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Aborted Current thread 0x00007ff84a2ca700 (most recent call first): File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py"", line 248 in swap_buffers File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py"", line 556 in swap_buffers File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/view.py"", line 202 in draw File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py"", line 84 in draw_new_frame File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py"", line 150 in _redraw_timer_callback File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 275 in event_loop File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 918 in init File ""/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1069 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, 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""4538a94d6301c641ba653217619d846326a8dce2"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""6246d6a916a70b047e454124"", ""factorPackIds"" : { }, ""deploymentId"" : 240000010 }, { ""rolloutId"" : ""6297d96be2c9387df974efa4"", ""factorPackIds"" : { }, ""deploymentId"" : 240000029 } ], ""experiments"" : [ { ""treatmentId"" : ""c47ab4cc-c9c3-4b5d-a87c-e2433ce02597"", ""experimentId"" : ""6639bc6ba73d460582162323"", ""deploymentId"" : 400000006 }, { ""treatmentId"" : ""45f4e2a5-551b-4bc2-a2dc-19c244dda8f8"", ""experimentId"" : ""6643969b3099cf28e049862f"", ""deploymentId"" : 400000004 } ] } } ===== Log before crash start ===== Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle UCSF ChimeraX version: 1.7.1 (2024-01-23) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > artiax start Using preset: ArtiaX / Artiax Default Preset expands to these ChimeraX commands: set bgColor black lighting depthCue false camera ortho Opened 08064_combined_mito_segs.mrc as #1.1.1, grid size 505,720,250, pixel 8,8,8, shown at level 1, step 1, values int8 > artiax tomo #1.1.1 sliceDirection 0,0,1 > artiax view xy > hide #!1.1.1 models > open > /Users/redzovicj/Documents/01cryoEM_lit/filtered_ribosomes_from_02-09-24_09-59.star > format star Opened Particle list filtered_ribosomes_from_02-09-24_09-59.star with 134996 particles. > hide #!1.2.1 models > show #!1.2.1 models > hide #!1.2.1 models > artiax particles #1.2.1 originScaleFactor 2.682 > artiax view xy > artiax particles #1.2.1 transScaleFactor 1.0 > artiax view xy > artiax particles #1.2.1 transScaleFactor 2.682 > artiax view xy > artiax tomo #1.1.1 pixelSize 21.456 > artiax view xy > artiax tomo #1.1.1 pixelSize 21.456 > artiax view xy > show #!1.1.1 models > volume #1.1.1 style surface > volume #1.1.1 level 0.09832 > show #!1.1 target m > set bgColor white > volume #1.1.1 color #945200 > view #1.1.1 clip false > volume #1.1.1 color #005493 > volume #1.1.1 color #0096ff > volume #1.1.1 color #0433ff > volume #1.1.1 color #531b93 > volume #1.1.1 color #942193 > volume #1.1.1 color #9437ff > volume #1.1.1 color #ff40ff > select #1.1.1 3 models selected > select #1.1.1 3 models selected > vop gaussian #1.1.1 sdev 64.4 Opened 08064_combined_mito_segs.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #2 level 0.03137 > view #1.1.1.2 clip false No displayed objects specified. > view #2 clip false > close #2 > show #!1.1.1 models > hide #!1 models > hide #1.1.1.1 models > show #!1 models > show #1.1.1.1 models > hide #!1.2 models Drag select of 1.1.1 08064_combined_mito_segs.mrc > vop gaussian #1.1.1 sdev 64.4 Opened 08064_combined_mito_segs.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #2 level 0.2526 > show #1.1.1.2 models > vop gaussian #1.1.1 Opened 08064_combined_mito_segs.mrc gaussian as #3, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #3 > volume #3 change image level 0,0 level 1,0.8 level 2,1 > volume #3 level 0.2528 > vop gaussian #3 Opened 08064_combined_mito_segs.mrc gaussian as #4, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #4 level 0.06909 > vop gaussian 2 #3 > volume gaussian 2 #3 Missing or invalid ""volumes"" argument: invalid density maps specifier > volume #4 style image imageMode ""full region"" > volume #4 level 0,0 level 1,0.8 level 2,1 > volume #4 style mesh > volume #4 style surface > close #3 > close #2 > hide #1.1.1.1 models > show #1.1.1.1 models > hide #!1.1.1 models > hide #!4 models > vop gaussian #1.1.1 sdev 64.4 Opened 08064_combined_mito_segs.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #2 level 0.6263 > volume #2 level 0.126 > volume #2 style mesh > volume #2 style image imageMode ""full region"" > close #4 > volume #2 level 0,0 level 0.1,0.8 level 1,1 > close #2 > vop gaussian #1.1.1.1 > vop gaussian #1 Opened 08064_combined_mito_segs.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #2 level 0.03987 > surface smooth #1.1.1 > close #3 > close #4 > view #5 clip false > vop gaussian #5 > show #!1.1.1 models > vop gaussian #1.1.1 Opened 08064_combined_mito_segs.mrc gaussian as #3, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > hide #5 models > volume #3 level 0.08997 > close #5 > close #2 > vop gaussian #3 Opened 08064_combined_mito_segs.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #2 level 0.04822 > vop gaussian #3 sdev2 > volume gaussian #3 sdev2 Expected a keyword > vop gaussian #3 sdev 2 Opened 08064_combined_mito_segs.mrc gaussian as #4, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #4 level 0.2194 > vop gaussian #3 sdev 20 Opened 08064_combined_mito_segs.mrc gaussian as #5, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #5 level 0.04389 > volume #5 level 0.09817 > vop gaussian #3 sdev 15 Opened 08064_combined_mito_segs.mrc gaussian as #6, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > volume #6 level 0.2484 > vop gaussian #3 sdev 100 Opened 08064_combined_mito_segs.mrc gaussian as #7, grid size 505,720,250, pixel 21.5, shown at step 1, values int8 > close #2-7 Opened seg_mito1.mrc as #1.1.1, grid size 505,720,250, pixel 8,8,8, shown at level 1, step 1, values float32 > artiax tomo #1.1.1 sliceDirection 0,0,1 > artiax view xy Opened seg_mito2.mrc as #1.1.2, grid size 505,720,250, pixel 8,8,8, shown at level 5e-05, step 1, values float32 > artiax tomo #1.1.2 sliceDirection 0,0,1 > artiax view xy > volume #1.1.2 style surface > volume #1.1.1 style surface > volume #1.1.1 level 0.03604 > vop gaussian #1.1.1 sdev 100 Opened seg_mito1.mrc gaussian as #2, grid size 505,720,250, pixel 8,8,8, shown at step 1, values float32 > vop gaussian #1.1.1 sdev 40 Opened seg_mito1.mrc gaussian as #3, grid size 505,720,250, pixel 8,8,8, shown at step 1, values float32 > close #2 > vop gaussian #1.1.1 sdev 10 Opened seg_mito1.mrc gaussian as #2, grid size 505,720,250, pixel 8,8,8, shown at step 1, values float32 > vop gaussian #1.1.1 sdev 15 Opened seg_mito1.mrc gaussian as #4, grid size 505,720,250, pixel 8,8,8, shown at step 1, values float32 > close #2 > close #3 > vop gaussian #1.1.2 sdev 15 Opened seg_mito2.mrc gaussian as #2, grid size 505,720,250, pixel 8,8,8, shown at step 1, values float32 Opened 08064_combined_mito_segs.mrc as #1.1.3, grid size 505,720,250, pixel 8,8,8, shown at level 1, step 1, values int8 > artiax tomo #1.1.3 sliceDirection 0,0,1 > artiax view xy > show #!1.1.2 models > hide #!1.1.2 models > artiax tomo #1.1.3 pixelSize 21.456 > artiax view xy > artiax tomo #1.1.3 pixelSize 21.456 > artiax view xy > artiax tomo #1.1.2 pixelSize 21.456 > artiax view xy > artiax tomo #1.1.2 pixelSize 21.456 > artiax view xy > hide #!1.1.3 models > show #!1.1.2 models > show #!1.1.1 models > artiax tomo #1.1.1 pixelSize 21.456 > artiax view xy > artiax tomo #1.1.1 pixelSize 21.456 > artiax view xy > volume #1.1.1 style surface > volume #1.1.2 style surface > volume #1.1.3 style surface > close #2,4 > vop gaussian #1.1.2 sdev 12 Opened seg_mito2.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > vop gaussian #1.1.2 sdev 15 Opened seg_mito2.mrc gaussian as #3, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > close #2 > vop gaussian #1.1.2 sdev 20 Opened seg_mito2.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > vop gaussian #1.1.2 sdev 40 Opened seg_mito2.mrc gaussian as #4, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > close #2-3 > vop gaussian #1.1.1 sdev 20 Opened seg_mito1.mrc gaussian as #2, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > vop gaussian #1.1.1 sdev 69 Opened seg_mito1.mrc gaussian as #3, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > vop gaussian #1.1.1 sdev 50 Opened seg_mito1.mrc gaussian as #5, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > vop gaussian #1.1.1 sdev 43 Opened seg_mito1.mrc gaussian as #6, grid size 505,720,250, pixel 21.5, shown at step 1, values float32 > close #2-3,5 > hide #!4 models > hide #!6 models > show #!1.1.1 models > hide #!1.1.1 models > show #!1.1.3 models 134996 atoms, 134996 residues, atom rlnCoordinateX range -6.47 to 4.05e+03 > artiax colormap #1.2.1.3 rlnCoordinateX palette purplelightblue minValue > -4.9156 maxValue 4040.377 transparency 0.0 > volume #1.1.3 level 0.09482 134996 atoms, 134996 residues, atom ClosestMitoDistanceNm range 0 to 1.53e+03 > artiax colormap #1.2.1.3 ClosestMitoDistanceNm palette purplelightblue > minValue 0.0 maxValue 1525.142829 transparency 0.0 > show #!1.2.1 models > hide #!1.2.1 models > open > /Users/redzovicj/Documents/01cryoEM_lit/NGM_bin1_rln_j005_filtsharp_PET_shifted_flip_x_gaussian_5sDev.mrc Opened NGM_bin1_rln_j005_filtsharp_PET_shifted_flip_x_gaussian_5sDev.mrc as #2, grid size 168,168,168, pixel 2.68, shown at level 0.487, step 1, values float32 > artiax attach #2 toParticleList #1.2.1 Opened NGM_bin1_rln_j005_filtsharp_PET_shifted_flip_x_gaussian_5sDev.mrc as #1.2.1.1.1, grid size 168,168,168, pixel 2.68, shown at level 0.487, step 1, values float32 > volume #1.2.1.1.1 capFaces false > artiax show #1.2.1 surfaces > show #!1.2.1 models > hide #!1.2.1 models ===== Log before crash end ===== Log: Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle UCSF ChimeraX version: 1.7.1 (2024-01-23) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > artiax start Using preset: ArtiaX / Artiax Default Preset expands to these ChimeraX commands: set bgColor black lighting depthCue false camera ortho OpenGL version: 4.1 INTEL-20.6.4 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics OpenGL Engine OpenGL vendor: Intel Inc. Python: 3.11.2 Locale: UTF-8 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro16,2 Processor Name: Quad-Core Intel Core i7 Processor Speed: 2,3 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 512 KB L3 Cache: 8 MB Hyper-Threading Technology: Enabled Memory: 16 GB System Firmware Version: 2020.41.1.0.0 (iBridge: 21.16.1069.0.0,0) OS Loader Version: 577.140.2~15 Software: System Software Overview: System Version: macOS 13.6.1 (22G313) Kernel Version: Darwin 22.6.0 Time since boot: 13 hours, 25 minutes Graphics/Displays: Intel Iris Plus Graphics: Chipset Model: Intel Iris Plus Graphics Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x8a53 Revision ID: 0x0007 Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Framebuffer Depth: 30-Bit Color (ARGB2101010) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal DELL E197FP: Resolution: 1280 x 1024 (SXGA - Super eXtended Graphics Array) UI Looks like: 1280 x 1024 @ 60.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: HM0706CG1C6S Mirror: Off Online: Yes Rotation: Supported Adapter Type: DVI or HDMI Adapter Firmware Version: 55,62 Installed Packages: alabaster: 0.7.16 annotated-types: 0.7.0 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.4.1 Babel: 2.14.0 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 blosc2: 2.0.0 build: 0.10.0 certifi: 2022.12.7 cftime: 1.6.3 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.13 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.4.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.2 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-ArtiaX: 0.1 ChimeraX-Atomic: 1.49.1 ChimeraX-AtomicLibrary: 12.1.5 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: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.10.5 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: 1.1 ChimeraX-CheckWaters: 1.3.2 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.5 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.7.1 ChimeraX-CoreFormats: 1.2 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: 1.1.3 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: 1.1.8 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 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: 2.1.2 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.6.1 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.14 ChimeraX-ModelPanel: 1.4 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: 1.1 ChimeraX-NRRD: 1.1 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.1 ChimeraX-PDB: 2.7.3 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 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.1 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-SelInspector: 1.0 ChimeraX-SeqView: 2.11 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.2 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.12.4 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: 2.2.2 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: 1.33.3 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.3.2 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: 1.1.3 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.1 contourpy: 1.2.0 cxservices: 1.2.2 cycler: 0.12.1 Cython: 0.29.33 debugpy: 1.8.0 decorator: 5.1.1 docutils: 0.19 executing: 2.0.1 filelock: 3.9.0 fonttools: 4.47.2 funcparserlib: 2.0.0a0 geomdl: 5.3.1 glfw: 2.6.4 grako: 3.16.5 h5py: 3.10.0 html2text: 2020.1.16 idna: 3.6 ihm: 0.38 imagecodecs: 2023.9.18 imagesize: 1.4.1 ipykernel: 6.23.2 ipython: 8.14.0 ipython-genutils: 0.2.0 ipywidgets: 8.1.1 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.2.0 jupyter-core: 5.7.1 jupyterlab-widgets: 3.0.9 kiwisolver: 1.4.5 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.4 matplotlib: 3.7.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.6.0 netCDF4: 1.6.2 networkx: 3.1 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.8 numpy: 1.25.1 openvr: 1.23.701 packaging: 21.3 pandas: 2.2.2 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.9.0 pickleshare: 0.7.5 pillow: 10.2.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 4.1.0 prompt-toolkit: 3.0.43 psutil: 5.9.5 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pyarrow: 16.1.0 pycollada: 0.7.2 pydantic: 2.7.2 pydantic-core: 2.18.3 pydicom: 2.3.0 Pygments: 2.16.1 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.2801 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2023.3.post1 pyzmq: 25.1.2 qtconsole: 5.4.3 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.11.1 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: 2.5 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 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 starfile: 0.5.8 superqt: 0.5.0 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2023.7.18 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.4 traitlets: 5.9.0 typing-extensions: 4.9.0 tzdata: 2023.4 urllib3: 2.1.0 wcwidth: 0.2.13 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.9 }}} " defect closed normal Graphics nonchimerax all ChimeraX