id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 9506 Graphics crash, macOS 13.3.1, Intel Iris Plus Graphics chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Aborted Thread 0x000070000f9cc000 (most recent call first): File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py"", line 316 in wait File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py"", line 574 in wait File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py"", line 1297 in run File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py"", line 973 in _bootstrap_inner File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py"", line 930 in _bootstrap Thread 0x000070001b9f0000 (most recent call first): File 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""rollouts"" : [ { ""rolloutId"" : ""6297d96be2c9387df974efa4"", ""factorPackIds"" : { }, ""deploymentId"" : 240000008 }, { ""rolloutId"" : ""5ffde50ce2aacd000d47a95f"", ""factorPackIds"" : { }, ""deploymentId"" : 240000303 } ], ""experiments"" : [ { ""treatmentId"" : ""a092db1b-c401-44fa-9c54-518b7d69ca61"", ""experimentId"" : ""64a844035c85000c0f42398a"", ""deploymentId"" : 400000016 }, { ""treatmentId"" : ""3a3cf641-8471-4e4e-9ad4-81d0ede970fd"", ""experimentId"" : ""64a84dae90d82611a0bd7d3d"", ""deploymentId"" : 400000010 } ] } } ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet You can double click a model's Name or ID in the model panel to edit those fields UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/jon/Dropbox (Scripps Research)/Foundry/Foundry > (1)/NA/Immunogen/Ind11_N2_S245N_initial_model_tetramer.pdb"" Chain information for Ind11_N2_S245N_initial_model_tetramer.pdb #1 --- Chain | Description A C D E | No description available > set bgColor white > hide cartoons > show cartoons > show atoms > hide atoms > color #1 silver > color #1 darkgrey > lighting soft > lighting full > lighting simple > lighting soft > select #0 D Expected a keyword > select #0:D Nothing selected > select #0/A Nothing selected > select #0/a Nothing selected > select #0:/a Expected an objects specifier or a keyword > select #0 /a Nothing selected > select #0 /A Nothing selected > select #0/A Nothing selected > select /A 3099 atoms, 3126 bonds, 6 pseudobonds, 444 residues, 2 models selected > select #1/A 3099 atoms, 3126 bonds, 6 pseudobonds, 444 residues, 2 models selected > color #1 #919191ff > color #1 silver > color #1 #73fa79ff > color #1 silver > color (#!1 & sel) #009051ff > color (#!1 & sel) #919191ff > color (#!1 & sel) #797979ff > color (#!1 & sel) #5e5e5eff > color (#!1 & sel) #797979ff > select clear > color #a9a9a9ff > color #c0c0c0ff > select #1/B 61 atoms, 65 bonds, 5 residues, 1 model selected > select #1/A 3099 atoms, 3126 bonds, 6 pseudobonds, 444 residues, 2 models selected > color (#!1 & sel) #797979ff > select #1/C 3099 atoms, 3126 bonds, 444 residues, 1 model selected > color sel #919191ff > color sel #797979ff > select clear > select #1/C 88 Expected a keyword > ui tool show ""Show Sequence Viewer"" > sequence chain /A /C /D /E Alignment identifier is 1 > select /A,C-E:86 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:86 32 atoms, 28 bonds, 4 residues, 1 model selected > show sel atoms > color sel #fffb00ff > style sel stick Changed 32 atom styles > color sel byhetero > select clear > lighting soft > lighting full > lighting simple > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > graphics silhouettes true > graphics silhouettes false > set bgColor gray > set bgColor black > set bgColor white > select /A,C-E:104-109,142-146 332 atoms, 328 bonds, 44 residues, 1 model selected > select /A,C-E:104 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:104 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select clear > select /A,C-E:146 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:146-147 64 atoms, 60 bonds, 8 residues, 1 model selected > select /A,C-E:141-142 64 atoms, 60 bonds, 8 residues, 1 model selected > select /A,C-E:141-142 64 atoms, 60 bonds, 8 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:104-109,142-146 332 atoms, 328 bonds, 44 residues, 1 model selected > select /A,C-E:146 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:146 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:199 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:199 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:201 20 atoms, 16 bonds, 4 residues, 1 model selected > select /A,C-E:200-201 52 atoms, 48 bonds, 8 residues, 1 model selected > select /A,C-E:200-201 52 atoms, 48 bonds, 8 residues, 1 model selected > select /A,C-E:200-201 52 atoms, 48 bonds, 8 residues, 1 model selected > select /A,C-E:200 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:200 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #ff2600ff > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:208 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:208 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:234 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:234 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:245 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:245 32 atoms, 28 bonds, 4 residues, 1 model selected > show sel atoms > color sel #ff2600ff > color sel #fffb00ff > color sel byhetero > select /A,C-E:306 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:306 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:329 24 atoms, 20 bonds, 4 residues, 1 model selected > select /A,C-E:329 24 atoms, 20 bonds, 4 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:342 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:342 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #ff40ffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:358 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:358 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:367 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:367 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #fffb00ff > color sel #ff2600ff > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:419 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:419 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #ff40ffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:384-385 60 atoms, 56 bonds, 8 residues, 1 model selected > select /A,C-E:386 20 atoms, 16 bonds, 4 residues, 1 model selected > select /A,C-E:385-386 56 atoms, 52 bonds, 8 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select clear > save ""/Users/jon/Dropbox (Scripps Research)/Foundry/Foundry > (1)/NA/Immunogen/Ind11_N2_S245N_Hyperglycosylation.cxs"" > save Ind11_S245N_Hyperglycosylation_all_TOP.tiff supersample 8 > transparentBackground Missing ""transparentBackground"" keyword's argument > true Unknown command: true > save Ind11_S245N_Hyperglycosylation_all_TOP.tiff supersample 8 > transparentBackground Backgroundtrue Invalid ""transparentBackground"" argument: Expected true or false (or 1 or 0) > save Ind11_S245N_Hyperglycosylation_all_TOP.tiff supersample 8 > transparentBackground Background true Invalid ""transparentBackground"" argument: Expected true or false (or 1 or 0) > save /Users/jontorres/Desktop/Ind11_S245N_Hyperglycosylation_all_TOP.tiff > supersample 8​ Invalid ""supersample"" argument: Expected an integer No map chosen to save > save /Users/jontorres/Desktop/Ind11_S245N_Hyperglycosylation_all_TOP.tiff > supersample Missing ""supersample"" keyword's argument > save /Users/jontorres/Desktop/Ind11_S245N_Hyperglycosylation_all_TOP.tiff > supersample transparentBackground true Invalid ""supersample"" argument: Expected an integer ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. > open ""/Users/jon/Dropbox (Scripps Research)/Foundry/Foundry > (1)/NA/Immunogen/Ind11_N2_S245N_Hyperglycosylation.cxs"" Log from Wed Aug 2 15:27:46 2023 Startup Messages --- note | available bundle cache has not been initialized yet You can double click a model's Name or ID in the model panel to edit those fields UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/jon/Dropbox (Scripps Research)/Foundry/Foundry > (1)/NA/Immunogen/Ind11_N2_S245N_initial_model_tetramer.pdb"" Chain information for Ind11_N2_S245N_initial_model_tetramer.pdb #1 --- Chain | Description A C D E | No description available > set bgColor white > hide cartoons > show cartoons > show atoms > hide atoms > color #1 silver > color #1 darkgrey > lighting soft > lighting full > lighting simple > lighting soft > select #0 D Expected a keyword > select #0:D Nothing selected > select #0/A Nothing selected > select #0/a Nothing selected > select #0:/a Expected an objects specifier or a keyword > select #0 /a Nothing selected > select #0 /A Nothing selected > select #0/A Nothing selected > select /A 3099 atoms, 3126 bonds, 6 pseudobonds, 444 residues, 2 models selected > select #1/A 3099 atoms, 3126 bonds, 6 pseudobonds, 444 residues, 2 models selected > color #1 #919191ff > color #1 silver > color #1 #73fa79ff > color #1 silver > color (#!1 & sel) #009051ff > color (#!1 & sel) #919191ff > color (#!1 & sel) #797979ff > color (#!1 & sel) #5e5e5eff > color (#!1 & sel) #797979ff > select clear > color #a9a9a9ff > color #c0c0c0ff > select #1/B 61 atoms, 65 bonds, 5 residues, 1 model selected > select #1/A 3099 atoms, 3126 bonds, 6 pseudobonds, 444 residues, 2 models selected > color (#!1 & sel) #797979ff > select #1/C 3099 atoms, 3126 bonds, 444 residues, 1 model selected > color sel #919191ff > color sel #797979ff > select clear > select #1/C 88 Expected a keyword > ui tool show ""Show Sequence Viewer"" > sequence chain /A /C /D /E Alignment identifier is 1 > select /A,C-E:86 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:86 32 atoms, 28 bonds, 4 residues, 1 model selected > show sel atoms > color sel #fffb00ff > style sel stick Changed 32 atom styles > color sel byhetero > select clear > lighting soft > lighting full > lighting simple > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > graphics silhouettes true > graphics silhouettes false > set bgColor gray > set bgColor black > set bgColor white > select /A,C-E:104-109,142-146 332 atoms, 328 bonds, 44 residues, 1 model selected > select /A,C-E:104 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:104 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select clear > select /A,C-E:146 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:146-147 64 atoms, 60 bonds, 8 residues, 1 model selected > select /A,C-E:141-142 64 atoms, 60 bonds, 8 residues, 1 model selected > select /A,C-E:141-142 64 atoms, 60 bonds, 8 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:104-109,142-146 332 atoms, 328 bonds, 44 residues, 1 model selected > select /A,C-E:146 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:146 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:199 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:199 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:201 20 atoms, 16 bonds, 4 residues, 1 model selected > select /A,C-E:200-201 52 atoms, 48 bonds, 8 residues, 1 model selected > select /A,C-E:200-201 52 atoms, 48 bonds, 8 residues, 1 model selected > select /A,C-E:200-201 52 atoms, 48 bonds, 8 residues, 1 model selected > select /A,C-E:200 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:200 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #ff2600ff > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:208 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:208 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:234 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:234 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:245 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:245 32 atoms, 28 bonds, 4 residues, 1 model selected > show sel atoms > color sel #ff2600ff > color sel #fffb00ff > color sel byhetero > select /A,C-E:306 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:306 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:329 24 atoms, 20 bonds, 4 residues, 1 model selected > select /A,C-E:329 24 atoms, 20 bonds, 4 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:342 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:342 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #ff40ffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:358 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:358 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:367 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:367 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #fffb00ff > color sel #ff2600ff > color sel #fffb00ff > show sel atoms > color sel byhetero > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:419 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:419 32 atoms, 28 bonds, 4 residues, 1 model selected > color sel #ff40ffff > color sel #00f900ff > show sel atoms > color sel byhetero > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:393 32 atoms, 28 bonds, 4 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:384-385 60 atoms, 56 bonds, 8 residues, 1 model selected > select /A,C-E:386 20 atoms, 16 bonds, 4 residues, 1 model selected > select /A,C-E:385-386 56 atoms, 52 bonds, 8 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > select /A,C-E:385 36 atoms, 32 bonds, 4 residues, 1 model selected > color sel #00fdffff > color sel #00f900ff > show sel atoms > color sel byhetero > select clear > save ""/Users/jon/Dropbox (Scripps Research)/Foundry/Foundry > (1)/NA/Immunogen/Ind11_N2_S245N_Hyperglycosylation.cxs"" ——— End of log from Wed Aug 2 15:27:46 2023 ——— opened ChimeraX session OpenGL version: 4.1 INTEL-20.5.7 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics OpenGL Engine OpenGL vendor: Intel Inc. Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.4.2, Qt 6.4.2 Qt runtime version: 6.4.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro16,2 Processor Name: Quad-Core Intel Core i5 Processor Speed: 2 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 512 KB L3 Cache: 6 MB Hyper-Threading Technology: Enabled Memory: 16 GB System Firmware Version: 1968.100.17.0.0 (iBridge: 20.16.4252.0.0,0) OS Loader Version: 577~129 Software: System Software Overview: System Version: macOS 13.3.1 (a) (22E772610a) Kernel Version: Darwin 22.4.0 Time since boot: 14 days, 5 hours, 2 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: No Connection Type: Internal LG UltraFine: Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition) UI Looks like: 1920 x 1080 @ 60.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: 909NTTQBE673 Mirror: Off Online: Yes Rotation: Supported Automatically Adjust Brightness: Yes Connection Type: Thunderbolt/DisplayPort Installed Packages: alabaster: 0.7.13 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.2.1 Babel: 2.12.1 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 build: 0.10.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 3.1.0 ChimeraX-AddCharge: 1.5.9.1 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.3.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.9.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.43.10 ChimeraX-AtomicLibrary: 10.0.6 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: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.8 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: 1.0.2 ChimeraX-CheckWaters: 1.3.1 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.3 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.6.1 ChimeraX-CoreFormats: 1.1 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: 1.1.1 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: 1.2.1 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-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 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: 2.0.12 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.9 ChimeraX-ModelPanel: 1.3.7 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.0 ChimeraX-NRRD: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.10.1 ChimeraX-PDB: 2.7.2 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 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: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 3.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.1 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.8.3 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10.3 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: 2.2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Topography: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.28.4 ChimeraX-uniprot: 2.2.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.2 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.1 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.1.3 contourpy: 1.0.7 cxservices: 1.2.2 cycler: 0.11.0 Cython: 0.29.33 debugpy: 1.6.7 decorator: 5.1.1 docutils: 0.19 executing: 1.2.0 filelock: 3.9.0 fonttools: 4.39.3 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.8.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.35 imagecodecs: 2022.2.22 imagesize: 1.4.1 importlib-metadata: 6.6.0 ipykernel: 6.21.1 ipython: 8.10.0 ipython-genutils: 0.2.0 ipywidgets: 8.0.6 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.0.2 jupyter-core: 5.3.0 jupyterlab-widgets: 3.0.7 kiwisolver: 1.4.4 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.2 matplotlib: 3.6.3 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.2 networkx: 2.8.8 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.4 numpy: 1.23.5 openvr: 1.23.701 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.3.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 3.5.0 prompt-toolkit: 3.0.38 psutil: 5.9.4 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.14.0 pynrrd: 1.0.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.4.2 PyQt6-Qt6: 6.4.3 PyQt6-sip: 13.4.1 PyQt6-WebEngine-commercial: 6.4.0 PyQt6-WebEngine-Qt6: 6.4.3 python-dateutil: 2.8.2 pytz: 2023.3 pyzmq: 25.0.2 qtconsole: 5.4.0 QtPy: 2.3.1 RandomWords: 0.4.0 requests: 2.28.2 scipy: 1.9.3 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: 2.4.1 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 sphinxcontrib-applehelp: 1.0.4 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.1 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 tcia-utils: 1.2.0 tifffile: 2022.10.10 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.3.1 traitlets: 5.9.0 typing-extensions: 4.5.0 tzdata: 2023.3 urllib3: 1.26.15 wcwidth: 0.2.6 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.7 zipp: 3.15.0 }}} " defect closed normal Graphics nonchimerax all ChimeraX