id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17214 VR: float division by zero gregdp@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.22631 ChimeraX Version: 1.10.dev202503260000 (2025-03-26 00:00:48 UTC) Description I opened a scene with a 3D density map and a model Types 'xr on' Log: UCSF ChimeraX version: 1.10.dev202503260000 (2025-03-26) © 2016-2025 Regents of the University of California. All rights reserved. > open C:/Users/gregp/_data/Ribozyme_2p2/Ribozyme_2p2_session.cxs Opened Con2-2.2A_sh.mrc as #1, grid size 256,256,256, pixel 0.82, shown at level 4.08, step 1, values float32 Opened Con2-2.2A_sh_int1.mrc as #3, grid size 23,28,24, pixel 0.82,0.82,0.82, shown at step 1, values float32 Opened Con2-2.2A_sh_int2.mrc as #4, grid size 36,31,37, pixel 0.82,0.82,0.82, shown at step 1, values float32 Log from Wed Feb 12 12:29:24 2025 Startup Messages --- note | available bundle cache has not been initialized yet > mousemode control rightMode zone > mousemode command wheelMode ""contour level"" > mousemode setting ""contour level"" speed .2 > mousemode middleMode ""center or translate"" > alias clipso clipper assoc #1 to #2 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/greg/Dropbox/_data/Ribozyme_2p2/Con2-2.2A_sh.mrc Opened Con2-2.2A_sh.mrc as #1, grid size 256,256,256, pixel 0.82, shown at level 1.7, step 1, values float32 > volume #1 level 6.063 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-297-water_54-ion.pdb Chain information for Con2-297-water_54-ion.pdb #2 --- Chain | Description N | No description available > nucleotides atoms > volume #1 color #b2b2b2aa > volume #1 color #b2b2b29c > close #2 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-297-water_54-ion.pdb Chain information for Con2-297-water_54-ion.pdb #2 --- Chain | Description N | No description available > select clear > nucleotides atoms > view name out > select clear > turn y 0.1 3600 center #1 > close #2 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-297-water_54-ion.pdb Chain information for Con2-297-water_54-ion.pdb #2 --- Chain | Description N | No description available > select clear > nucleotides atoms > view out frames 100 > close #2 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-297-water_54-ion.pdb Chain information for Con2-297-water_54-ion.pdb #2 --- Chain | Description N | No description available > nucleotides atoms > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-2.2A_sh_int1.mrc Opened Con2-2.2A_sh_int1.mrc as #3, grid size 23,28,24, pixel 0.82,0.82,0.82, shown at level 15, step 1, values float32 > hide #!1 models > hide #2 models > select :273,256,422,779,781,782,778 68 atoms, 66 bonds, 7 residues, 1 model selected > show #2 models > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > volume #3 color darkgrey > volume #3 color #a9a9a994 > volume #3 level 6.095 > hide #3 > show #3 > view name in1 > select clear > volume #3 color #a9a9a974 > volume #3 color #a9a9a975 > view out > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > show #2 > ribbon #2 > view out > turn y 0.1 3600 center #1 > wait > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > show #3 > view in1 frames 90 > wait > turn y 0.1 3600 center :422 > wait > view out frames 90 > wait > show all > ribbon all executed Ribozyme_2p2_movie.cxc > select clear > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > view in1 frames 90 > wait > turn y 1.0 360 center :422 > wait > view out frames 90 > wait > show all > ribbon all executed Ribozyme_2p2_movie.cxc > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > wait 30 > view in1 frames 90 > wait > turn y 1.0 360 center :422 > wait > wait 30 > view out frames 90 > wait > show all > ribbon all executed Ribozyme_2p2_movie.cxc > volume #1 level 4.08 > select clear > volume #1 color #b2b2b27d > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > wait 30 > view in1 frames 90 > wait > turn y 1.0 360 center :422 > wait > wait 30 > view out frames 90 > wait > wait 30 > show all > ribbon all executed Ribozyme_2p2_movie.cxc > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > wait 30 > view in1 frames 90 > wait 120 > turn y 1.0 360 center :422 > wait > wait 30 > view out frames 90 > wait > wait 30 > show all > ribbon all executed Ribozyme_2p2_movie.cxc > close #2 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-297-water_54-ion.pdb Chain information for Con2-297-water_54-ion.pdb #2 --- Chain | Description N | No description available > nucleotides #2-3 atoms > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-2.2A_sh_int2.mrc Opened Con2-2.2A_sh_int2.mrc as #4, grid size 36,31,37, pixel 0.82,0.82,0.82, shown at level 13.4, step 1, values float32 > hide all > ~ribbon all > hide #!3 models > color #4 darkgrey models > color #4 #a9a9a968 models > color #4 #a9a9a969 models > show :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786 > volume #4 level 6.505 > close #2 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-297-water_54-ion.pdb Chain information for Con2-297-water_54-ion.pdb #2 --- Chain | Description N | No description available > nucleotides #2 atoms > close #4 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-2.2A_sh_int2.mrc Opened Con2-2.2A_sh_int2.mrc as #4, grid size 36,31,37, pixel 0.82,0.82,0.82, shown at level 13.4, step 1, values float32 > hide #2 models > volume #4 level 5.499 > volume #4 color darkgrey > volume #4 color #a9a9a96f > show > :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786,788 > volume #4 color #a9a9a970 > show #2 models > hide all > ~ribbon all > show > :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786,788 > view out > view name in2 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > hide #4 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > wait 30 > view in1 frames 90 > wait 120 > turn y 1.0 360 center :422 > wait > wait 30 > view out frames 90 > wait 120 > hide #3 > show #4 > show > :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786,788 > wait 30 > view in2 frames 90 > wait 120 > turn y 1.0 360 center #4 > wait > wait 30 > view out frames 90 > wait 120 executed Ribozyme_2p2_movie.cxc > hide all > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > hide #4 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > wait 30 > view in1 frames 90 > wait 120 > turn y 1.0 360 center :422 > wait > wait 30 > view out frames 90 > wait 120 > hide #3 > show #4 > hide all > show > :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786,788 > wait 30 > view in2 frames 90 > wait 120 > turn y 1.0 360 center #4 > wait > wait 30 > view out frames 90 > wait 120 executed Ribozyme_2p2_movie.cxc > close #2 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-297-water_54-ion.pdb Chain information for Con2-297-water_54-ion.pdb #2 --- Chain | Description N | No description available > close #4 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Con2-2.2A_sh_int2.mrc Opened Con2-2.2A_sh_int2.mrc as #4, grid size 36,31,37, pixel 0.82,0.82,0.82, shown at level 12.7, step 1, values float32 > volume #4 color #a9a9a948 > volume #4 color #a9a9a947 > nucleotides #2,4 atoms > hide all > ~ribbon all > show > :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786,788 > view in2 > volume #4 level 6.027 > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > hide #4 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > wait 30 > view in1 frames 90 > wait 120 > turn y 1.0 360 center :422 > wait > wait 30 > view out frames 90 > wait 120 > hide #3 > show #4 > hide all > show > :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786,788 > wait 30 > view in2 frames 90 > wait 120 > turn y 1.0 360 center #4 > wait > wait 30 > view out frames 90 > wait 120 > hide #4 > show all > ribbon all > show #1 executed Ribozyme_2p2_movie.cxc > open /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_movie.cxc > show #1 > hide #3 > hide #4 > show #2 > ribbon #2 > view out > turn y 1.0 360 center #1 > wait > hide #1 > show #3 > ~show all > ~ribbon all > show :273,256,422,779,781,782,778 > wait 30 > view in1 frames 90 > wait 120 > turn y 1.0 360 center :422 > wait > wait 30 > view out frames 90 > wait 120 > hide #3 > show #4 > hide all > show > :170,171,168,183,110,212,530,570,507,569,508,783,507,784,785,787,786,788 > wait 30 > view in2 frames 90 > wait 120 > turn y 1.0 360 center #4 > wait > wait 30 > view out frames 90 > wait 120 > hide #4 > show all > ribbon all > show #1 executed Ribozyme_2p2_movie.cxc > save /Users/greg/Dropbox/_data/Ribozyme_2p2/Ribozyme_2p2_session.cxs ——— End of log from Wed Feb 12 12:29:24 2025 ——— > view name session-start opened ChimeraX session > xr true > mousemode setting zoom speed 0.2 started OpenXR rendering SonySRD System, render size 3840 by 2160 xr.begin_frame() failed: The session <>. The Sony Spatial Reality display appears to be turned off or sleeping. Unfortunately the Sony OpenXR driver is broken and if the Sony display slept you will need to turn OpenXR off and back on in ChimeraX to get it to work again. If you attempted to start OpenXR when the Sony display is off, you will need to restart ChimeraX to get it to work. Traceback (most recent call last): File ""C:\Users\gregp\Apps\ChimeraX 1.10.dev202503260000\bin\Lib\site- packages\chimerax\mouse_modes\mousemodes.py"", line 666, in _wheel_event f.wheel(MouseEvent(event)) File ""C:\Users\gregp\Apps\ChimeraX 1.10.dev202503260000\bin\Lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 754, in wheel self.zoom(delta_z, stereo_scaling = not event.alt_down()) File ""C:\Users\gregp\Apps\ChimeraX 1.10.dev202503260000\bin\Lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 768, in zoom v.stereo_scaling(delta_z) File ""C:\Users\gregp\Apps\ChimeraX 1.10.dev202503260000\bin\Lib\site- packages\chimerax\graphics\view.py"", line 1109, in stereo_scaling c.eye_separation_scene *= f ^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Users\gregp\Apps\ChimeraX 1.10.dev202503260000\bin\Lib\site- packages\chimerax\vive\xr.py"", line 1120, in _set_eye_separation_scene f = dist / sep ~~~~~^~~~~ ZeroDivisionError: float division by zero ZeroDivisionError: float division by zero File ""C:\Users\gregp\Apps\ChimeraX 1.10.dev202503260000\bin\Lib\site- packages\chimerax\vive\xr.py"", line 1120, in _set_eye_separation_scene f = dist / sep ~~~~~^~~~~ See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 552.74 OpenGL renderer: NVIDIA RTX 2000 Ada Generation Laptop GPU/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Python: 3.11.4 Locale: en_US.cp1252 Qt version: PyQt6 6.8.1, Qt 6.8.2 Qt runtime version: 6.8.2 Qt platform: windows Manufacturer: Dell Inc. Model: Precision 5690 OS: Microsoft Windows 11 Pro (Build 22631) Memory: 33,777,467,392 MaxProcessMemory: 137,438,953,344 CPU: 22 Intel(R) Core(TM) Ultra 9 185H OSLanguage: en-US Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 asttokens: 3.0.0 auditwheel: 6.3.0 autocommand: 2.2.2 babel: 2.17.0 backports.tarfile: 1.2.0 beautifulsoup4: 4.13.3 blockdiag: 3.0.0 blosc2: 3.2.0 build: 1.2.2.post1 certifi: 2025.1.31 cftime: 1.6.4.post1 charset-normalizer: 3.4.1 ChimeraX-AddCharge: 1.5.18 ChimeraX-AddH: 2.2.7 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.19.1 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Aniso: 1.1.1 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.60.5 ChimeraX-AtomicLibrary: 14.1.13 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.3 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 3.0.0 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.2 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.4.0 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: 2.3 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.8 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.10.dev202503260000 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: 1.5.3 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 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.2 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: 1.5.18 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-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: 2.7.7 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: 1.1.2 ChimeraX-ProfileGrids: 1.1.1 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: 1.2.0 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: 1.44 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: 1.1.4 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 comtypes: 1.4.10 contourpy: 1.3.1 coverage: 7.7.1 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.0.12 debugpy: 1.8.13 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.0 filelock: 3.18.0 fonttools: 4.56.0 funcparserlib: 2.0.0a0 glfw: 2.8.0 grako: 3.16.5 h5py: 3.13.0 html2text: 2024.2.26 idna: 3.10 ihm: 2.2 imagecodecs: 2024.6.1 imagesize: 1.4.1 importlib_metadata: 8.0.0 inflect: 7.3.1 iniconfig: 2.1.0 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.5 jaraco.collections: 5.1.0 jaraco.context: 5.3.0 jaraco.functools: 4.0.1 jaraco.text: 3.12.1 jedi: 0.19.1 Jinja2: 3.1.6 jupyter_client: 8.6.3 jupyter_core: 5.7.2 jupyterlab_widgets: 3.0.13 kiwisolver: 1.4.8 line_profiler: 4.2.0 lxml: 5.3.1 lz4: 4.3.3 MarkupSafe: 3.0.2 matplotlib: 3.9.2 matplotlib-inline: 0.1.7 more-itertools: 10.3.0 msgpack: 1.1.0 ndindex: 1.9.2 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.2 numpy: 1.26.4 OpenMM: 8.2.0 openvr: 1.26.701 packaging: 24.2 packaging: 24.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pickleshare: 0.7.5 pillow: 10.4.0 pip: 25.0.1 pkginfo: 1.11.1 platformdirs: 4.3.7 platformdirs: 4.2.2 pluggy: 1.5.0 prompt_toolkit: 3.0.50 psutil: 7.0.0 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: 8.3.5 pytest-cov: 6.0.0 python-dateutil: 2.9.0.post0 pytz: 2025.2 pywin32: 310 pyzmq: 26.3.0 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: 75.8.2 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.6 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 tomli: 2.0.1 tornado: 6.4.2 traitlets: 5.14.3 typeguard: 4.3.0 typing_extensions: 4.13.0 typing_extensions: 4.12.2 tzdata: 2025.2 urllib3: 2.3.0 wcwidth: 0.2.13 webcolors: 24.11.1 wheel: 0.45.1 wheel: 0.43.0 wheel-filename: 1.4.2 widgetsnbextension: 4.0.13 WMI: 1.5.1 zipp: 3.19.2 }}} " defect closed normal VR fixed all ChimeraX