id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 18623 Crash on Mac waking from sleep mrafiq@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.5-arm64-arm-64bit ChimeraX Version: 1.10 (2025-06-26 08:57:52 UTC) Description Last time you used ChimeraX it crashed. This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX. Fatal Python error: Segmentation fault Current thread 0x00000001fd6c5f00 (most recent call first): File ""/Applications/ChimeraX-1.10.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-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1057 in init File ""/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1220 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, chimerax.surface._surface, chimerax.pdb_lib._load_libs, 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, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize (total: 52) 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""arm64e"", ""base"" : 6696271872, ""size"" : 636112, ""uuid"" : ""9cf0401a-a938-389e-a77d-9e9608076ccf"", ""path"" : ""\/usr\/lib\/dyld"", ""name"" : ""dyld"" }, { ""size"" : 0, ""source"" : ""A"", ""base"" : 0, ""uuid"" : ""00000000-0000-0000-0000-000000000000"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6723555328, ""CFBundleShortVersionString"" : ""6.9"", ""CFBundleIdentifier"" : ""com.apple.Foundation"", ""size"" : 14586624, ""uuid"" : ""e8f6a451-0acc-3e05-b18f-fec6618ce44a"", ""path"" : ""\/System\/Library\/Frameworks\/Foundation.framework\/Versions\/C\/Foundation"", ""name"" : ""Foundation"", ""CFBundleVersion"" : ""3502.1.401"" } ], ""sharedCache"" : { ""base"" : 6695436288, ""size"" : 5047205888, ""uuid"" : ""d7397d7f-8df9-3920-81a7-c0a144be9c51"" }, ""vmSummary"" : ""ReadOnly portion of Libraries: Total=1.9G resident=0K(0%) swapped_out_or_unallocated=1.9G(100%)\nWritable regions: Total=3.5G written=85.2M(2%) resident=2131K(0%) swapped_out=83.1M(2%) unallocated=3.4G(98%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 256K 2 \nActivity Tracing 256K 1 \nCG image 2672K 57 \nColorSync 720K 37 \nCoreAnimation 2928K 158 \nCoreGraphics 64K 4 \nCoreServices 624K 2 \nCoreUI image data 5472K 39 \nFoundation 48K 2 \nKernel Alloc Once 32K 1 \nMALLOC 2.8G 117 \nMALLOC guard page 288K 18 \nMach message 64K 2 \nOpenGL GLSL 384K 4 \nSTACK GUARD 576K 36 \nStack 199.2M 37 \nStack Guard 56.0M 1 \nVM_ALLOCATE 294.7M 233 \nVM_ALLOCATE (reserved) 160.0M 3 reserved VM address space (unallocated)\n__AUTH 5521K 697 \n__AUTH_CONST 77.4M 944 \n__CTF 824 1 \n__DATA 37.1M 1074 \n__DATA_CONST 37.0M 1092 \n__DATA_DIRTY 2778K 342 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 645.3M 142 \n__OBJC_RO 61.4M 1 \n__OBJC_RW 2396K 1 \n__TEXT 1.3G 1110 \n__TEXT (graphics) 288K 2 \n__TPRO_CONST 128K 2 \ndyld private memory 1200K 10 \nmapped file 654.4M 101 \npage table in kernel 2131K 1 \nshared memory 3280K 29 \n=========== ======= ======= \nTOTAL 6.3G 6306 \nTOTAL, minus reserved VM space 6.2G 6306 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""f303680ab7ff50321ccb0df7248e729e19344f84"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""5f72dc58705eff005a46b3a9"", ""factorPackIds"" : { }, ""deploymentId"" : 240000015 }, { ""rolloutId"" : ""67181b10c68c361a728c7cfa"", ""factorPackIds"" : { }, ""deploymentId"" : 240000005 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.10 (2025-06-26) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/mariarafiq/Documents/SLC33/IXA4C/Phenix/Deposition/pdb_submitted/IXA4.pdb Chain information for IXA4.pdb #1 --- Chain | Description A | No description available > open /Users/mariarafiq/Documents/SLC33/Ixa4/Phenix/J277_aligned_topdb.mrc Opened J277_aligned_topdb.mrc as #2, grid size 256,256,256, pixel 0.727, shown at level 0.0418, step 1, values float32 > volume #2 level 0.07587 > color #2 #dc6af5ff models > color #2 salmon models > lighting soft > color #2 #ef9a55ff models > camera ortho > volume #2 level 0.08252 > hide #!2 models > select add #1 7383 atoms, 7493 bonds, 2 pseudobonds, 445 residues, 2 models selected > select /A 7383 atoms, 7493 bonds, 2 pseudobonds, 445 residues, 2 models selected > color (#!1 & sel) light gray > show #!2 models > select ::name=""LIG"" 60 atoms, 62 bonds, 1 residue, 1 model selected > color sel forest green > select ::name=""Y01"" 252 atoms, 261 bonds, 3 residues, 1 model selected > color sel dim gray > ui tool show ""Color Zone"" > color zone #2 near #1 distance 4.36 > color single #2 Need to color zone map before it can be split > color zone #2 near #1 distance 6 > color zone #2 near #1 distance 9 > select ::name=""Y01"" 252 atoms, 261 bonds, 3 residues, 1 model selected > color sel magenta > color zone #2 near #1 distance 9 > color zone #2 near #1 distance 8 > color zone #2 near #1 distance 6 > color zone #2 near #1 distance 4 > hide #!2 models > select /A 7383 atoms, 7493 bonds, 2 pseudobonds, 445 residues, 2 models selected > color #1 #ef9a55ff > select ::name=""LIG"" 60 atoms, 62 bonds, 1 residue, 1 model selected > color sel light sea green > color sel forest green > select ::name=""Y01"" 252 atoms, 261 bonds, 3 residues, 1 model selected > color sel light gray > show #!2 models > color zone #2 near #1 distance 4 > volume splitbyzone #2 Opened J277_aligned_topdb.mrc 0 as #3.1, grid size 256,256,256, pixel 0.727, shown at level 0.0825, step 1, values float32 Opened J277_aligned_topdb.mrc 1 as #3.2, grid size 256,256,256, pixel 0.727, shown at level 0.0825, step 1, values float32 Opened J277_aligned_topdb.mrc 2 as #3.3, grid size 256,256,256, pixel 0.727, shown at level 0.0825, step 1, values float32 Opened J277_aligned_topdb.mrc 3 as #3.4, grid size 256,256,256, pixel 0.727, shown at level 0.0825, step 1, values float32 > hide #!3.3 models > hide #!3.2 models > hide #!1 models > volume #3.4 level 0.01319 > surface dust #3.1 size 7.27 > surface dust #3.4 size 7.27 > show #!1 models > volume #3.1 level 0.1303 > select add #3.1 252 atoms, 261 bonds, 3 residues, 3 models selected > select subtract #3.1 252 atoms, 261 bonds, 3 residues, 1 model selected > select add #3.2 252 atoms, 261 bonds, 3 residues, 3 models selected > show #!3.2 models > show #!3.3 models > select add #3.3 252 atoms, 261 bonds, 3 residues, 5 models selected > select subtract #3.3 252 atoms, 261 bonds, 3 residues, 3 models selected > volume #3.3 level 0.05619 > lighting gentle > select clear > surface dust #3.1 size 7.27 > surface dust #3.2 size 7.27 > surface dust #3.3 size 7.27 > surface dust #3.4 size 7.27 > ui tool show ""Side View"" > view > zoom Pixel size at center of rotation is 0.163 > zoom 5 > view > color #3.4 #42977eff models > color #3.4 #086d97ff models > color #3.4 #397497ff models > color #3.4 #52a9dcff models > color #3.4 #4c9bcbff models > color #3.4 #89accbff models > view name front > view front > movie record > turn y 2 180 > wait 180 > movie encode /Users/mariarafiq/Desktop/movie5.mp4 Movie saved to /Users/mariarafiq/Desktop/movie5.mp4 > hide #!3.2 models > show #!3.2 models > hide #!3.2 models > show #!3.2 models > color #3.2 #ef9a557d models > color #3.2 #ef9a5572 models > hide #!1 models > show #!1 models > view front > color #3.2 #ef9a55ff models > hide #!3 models > show #!2 models > color #2 #ef9a55e6 models > color #2 #ef9a55ff models > hide #!1 models > view front > movie record > turn y 2 180 > wait 180 > movie encode /Users/mariarafiq/Desktop/movie6.mp4 Movie saved to /Users/mariarafiq/Desktop/movie6.mp4 > hide #!2 models > show #!3 models > show #!1 models > movie record > turn y 2 180 > wait 180 > movie encode /Users/mariarafiq/Desktop/movie7.mp4 Movie saved to /Users/mariarafiq/Desktop/movie7.mp4 > hide #!1 models > hide #!3 models > show #!2 models > show #!1 models > hide #!2 models > show #!3 models > hide #!3.1 models > hide #!3.2 models > hide #!3.3 models > color #3.4 #89accb86 models Drag select of 13 residues > select up 1922 atoms, 1949 bonds, 116 residues, 1 model selected > select up 3598 atoms, 3652 bonds, 225 residues, 1 model selected > select up 3702 atoms, 3755 bonds, 231 residues, 1 model selected > select up 7071 atoms, 7170 bonds, 441 residues, 1 model selected > hide sel atoms > select clear > hide #!3.4 models Drag select of 1 atoms, 2 bonds > select up 3 atoms, 2 bonds, 1 residue, 1 model selected > select up 60 atoms, 62 bonds, 1 residue, 1 model selected > color sel #89accbff > color sel byhetero > select clear > color byhetero > show #!3.4 models > hide #!3.4 models > show #!3.4 models > view front > hide #!3 models > show #!3.1 models > show #!3.2 models > show #!3.3 models > hide #!1 models > show #!2 models > hide #!3 models > view front > movie record > turn y 2 180 > wait 180 > hide #!2 models > show #!3 models > show #!1 models > turn y 2 180 > wait 180 > hide #!3.1 models > hide #!3.2 models > hide #!3.3 models > turn y 2 180 > wait 180 > movie encode /Users/mariarafiq/Desktop/IXA4structure.mp4 Movie saved to /Users/mariarafiq/Desktop/IXA4structure.mp4 > hide #!3 models > select /A:349 10 atoms, 9 bonds, 1 residue, 1 model selected Drag select of 1 atoms > select up 2 atoms, 1 bond, 1 residue, 1 model selected > select up 60 atoms, 62 bonds, 1 residue, 1 model selected > view sel > show #!3 models > volume #3.4 level 0.02985 > select add #1 7383 atoms, 7493 bonds, 2 pseudobonds, 445 residues, 2 models selected > select subtract #1 Nothing selected > select :LIG : select add :LIG 475 atoms, 467 bonds, 28 residues, 1 model selected > show sel atoms > hide H > view > select clear > select :LIG : select clear > save > /Users/mariarafiq/Documents/SLC33/Ixa4/Phenix/deposition_Ixa4_SLC33/IXA4_zoomin_view.png > width 2000 height 1408 supersample 4 transparentBackground true > save /Users/mariarafiq/Downloads/IXA4_zoomin.png width 2000 height 1408 > supersample 4 transparentBackground true > view name LIG Drag select of 5 atoms, 10 residues, 3 bonds > select up 849 atoms, 856 bonds, 55 residues, 1 model selected > select up 6430 atoms, 6516 bonds, 401 residues, 1 model selected > transparency 60 > transparency 90 > select clear > undo > view name LIG > view LIG > select clear Drag select of 3.4 J277_aligned_topdb.mrc 3 , 4 atoms, 3 bonds > select ~sel & ##selected 7379 atoms, 7490 bonds, 2 pseudobonds, 445 residues, 2 models selected > select ~sel & ##selected 4 atoms, 3 bonds, 2 residues, 1 model selected > select clear Drag select of 3.4 J277_aligned_topdb.mrc 3 , 2 atoms, 1 bonds > select ~sel & ##selected 7381 atoms, 7492 bonds, 2 pseudobonds, 445 residues, 2 models selected > select clear > view LIG > save /Users/mariarafiq/Downloads/Session_IXA4_SLC.cxs includeMaps true > movie record > turn y 2 180 > wait 180 > movie encode /Users/mariarafiq/Desktop/movie8.mp4 Movie saved to /Users/mariarafiq/Desktop/movie8.mp4 > movie record > turn y 2 180 > wait 180 > movie encode /Users/mariarafiq/Desktop/movie9.mp4 Movie saved to /Users/mariarafiq/Desktop/movie9.mp4 > hide #!1 models > hide #!3 models > hide #2.1 models > hide #!3.4 models > open > /Users/mariarafiq/Documents/SLC33/Phenix/RealSpaceRefine_12/Refined12-coot-0.pdb Chain information for Refined12-coot-0.pdb #4 --- Chain | Description A | No description available > view > open > /Users/mariarafiq/Documents/SLC33/Phenix/RealSpaceRefine_13/Refined12-coot-3_real_space_refined_013.pdb Chain information for Refined12-coot-3_real_space_refined_013.pdb #5 --- Chain | Description A | No description available > open > /Users/mariarafiq/Documents/SLC33/Phenix/RealSpaceRefine_10/Refine9_coot1.pdb Chain information for Refine9_coot1.pdb #6 --- Chain | Description A | No description available > open > /Users/mariarafiq/Documents/SLC33/Phenix/RealSpaceRefine_9/Refine7_coot1_real_space_refined_009.pdb Chain information for Refine7_coot1_real_space_refined_009.pdb #7 --- Chain | Description A | No description available > open > /Users/mariarafiq/Documents/SLC33/Phenix/RealSpaceRefine_8/Refine7_coot1-coot-0_real_space_refined_008.pdb Chain information for Refine7_coot1-coot-0_real_space_refined_008.pdb #8 --- Chain | Description A | No description available > open > /Users/mariarafiq/Documents/SLC33/Phenix/RealSpaceRefine_6/Refine_coot1_real_space_refined_006.pdb Chain information for Refine_coot1_real_space_refined_006.pdb #9 --- Chain | Description A | No description available > close #9 > close #8 > close #7 > close #6 > close #5 > open > ""/Users/mariarafiq/Documents/SLC33/Phenix/Maps/cryosparc_P408_J557_003_volume_map_sharp > (1).mrc"" Opened cryosparc_P408_J557_003_volume_map_sharp (1).mrc as #5, grid size 400,400,400, pixel 0.74, shown at level 0.0351, step 2, values float32 > volume #5 step 1 > volume #5 level 0.2563 > volume #5 level 0.2447 > surface dust #5 size 7.4 > volume #5 level 0.3029 > volume #5 level 0.1593 > surface dust #5 size 7.4 > open /Users/mariarafiq/Documents/SLC33/EMready_aligned_model.pdb Chain information for EMready_aligned_model.pdb #6 --- Chain | Description A | No description available > close #6 > close #5 > close #4 > show #!1 models > view > show #!2 models > select add #2 2 models selected > show #2.1 models > show #!3 models > show #!3.1 models > show #!3.2 models > show #!3.3 models > show #!3.4 models > select subtract #2.1 1 model selected > select add #2.1 2 models selected > select subtract #2.1 1 model selected > select add #2 2 models selected > select subtract #2 Nothing selected > open > /Users/mariarafiq/Documents/SLC33/Ixa4/Phenix/deposition_Ixa4_SLC33/EMready.mrc Opened EMready.mrc as #4, grid size 256,256,256, pixel 0.727, shown at level 0.545, step 1, values float32 > volume #4 level 5.832 > hide #!2 models > hide #2.1 models > hide #!3 models > hide #!3.1 models > hide #!3.2 models > hide #!3.3 models > hide #!3.4 models > volume #4 level 3.432 > surface dust #4 size 7.27 > volume #4 level 4.373 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.10 (2025-06-26) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/mariarafiq/Downloads/emready2_map (17).mrc"" Opened emready2_map (17).mrc as #1, grid size 581,581,581, pixel 0.5, shown at level -0.0245, step 4, values float32 OpenGL version: 4.1 Metal - 89.4 OpenGL renderer: Apple M4 OpenGL vendor: Apple Python: 3.11.4 Locale: en_US.UTF-8 Qt version: PyQt6 6.8.1, Qt 6.8.2 Qt runtime version: 6.8.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: Mac16,1 Model Number: MW2V3LL/A Chip: Apple M4 Total Number of Cores: 10 (4 performance and 6 efficiency) Memory: 16 GB System Firmware Version: 11881.121.1 OS Loader Version: 11881.121.1 Software: System Software Overview: System Version: macOS 15.5 (24F74) Kernel Version: Darwin 24.5.0 Time since boot: 3 days, 9 hours, 25 minutes Graphics/Displays: Apple M4: Chipset Model: Apple M4 Type: GPU Bus: Built-In Total Number of Cores: 10 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal LG FULL HD: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 @ 75.00Hz Mirror: Off Online: Yes Rotation: Supported Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.0 auditwheel: 6.4.0 babel: 2.17.0 beautifulsoup4: 4.13.3 blockdiag: 3.0.0 blosc2: 3.5.0 build: 1.2.2.post1 certifi: 2023.11.17 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: 2.20.2 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Aniso: 1.1.4 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.60.7 ChimeraX-AtomicLibrary: 14.1.18 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: 1.0 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 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.10 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: 2.5.1 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: 1.6.2 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: 2.2.2 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.10.1 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.16 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.19 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 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: 1.14.1 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: 1.1.2 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.3 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: 2.0.3 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.5.7 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.17.1 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: 1.45.2 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: 1.1.5 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 contourpy: 1.3.2 coverage: 7.9.1 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.0.12 debugpy: 1.8.14 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.0 filelock: 3.18.0 fonttools: 4.58.4 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: 4.2.0 lxml: 5.3.1 lz4: 4.4.4 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: 25.0.1 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 pyelftools: 0.32 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: 6.8.1 PyQt6-Qt6: 6.8.2 PyQt6-WebEngine-commercial: 6.8.0 PyQt6-WebEngine-Qt6: 6.8.2 PyQt6_sip: 13.10.0 pytest: 8.4.1 pytest-cov: 6.2.1 python-dateutil: 2.9.0.post0 pytz: 2025.2 pyzmq: 27.0.0 qtconsole: 5.5.2 QtPy: 2.4.3 qtshim: 1.1 RandomWords: 0.4.0 requests: 2.32.3 roman-numerals-py: 3.1.0 scipy: 1.14.0 setuptools: 78.1.0 sfftk-rw: 0.8.1 six: 1.16.0 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: 0.7.1 tables: 3.10.2 tcia_utils: 1.5.1 tifffile: 2025.3.13 tinyarray: 1.2.4 tornado: 6.5.1 traitlets: 5.14.3 typing_extensions: 4.14.0 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 closed normal Window Toolkit duplicate all ChimeraX