id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 16564 volume flip: 'NoneType' object is not subscriptable um18fa@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-13.3-arm64-arm-64bit ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC) Description TypeError: 'NoneType' object is not subscriptable File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_filter/flip.py"", line 87, in flip_matrix m = m[::-1,:,:] ~^^^^^^^^^^ See log for complete Python traceback. Log: Startup Messages --- note | available bundle cache has not been initialized yet 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/francescappadoo/Desktop/EVs/160Sa_450box_round8_popro_masked.mrc Opened 160Sa_450box_round8_popro_masked.mrc as #1, grid size 450,450,450, pixel 0.82, shown at level 0.0056, step 2, values float32 > volume #1 step 1 > volume #1 level 0.00112 > volume #1 step 2 > volume flip #1 axis z Opened 160Sa_450box_round8_popro_masked.mrc z flip as #2, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 > close #1 > ui tool show ""Surface Color"" > color radial #2.1 palette #ff0000:#ffffff:#0000ff center 184.5,184.5,183.68 > color radial #2.1 palette 114.6,#00f900:141.8,#ff9300:168.9,#ff2600 center > 184.5,184.5,183.68 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,183.68 > ui tool show ""Side View"" > close > open /Users/francescappadoo/Desktop/EVs/160Sa_450box_round8_popro.mrc Opened 160Sa_450box_round8_popro.mrc as #1, grid size 450,450,450, pixel 0.82, shown at level 0.00683, step 2, values float32 > volume flip #1 axis z Opened 160Sa_450box_round8_popro.mrc z flip as #2, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 > surface dust #2 size 8.2 > volume #1 level 0.00112 > close #1 > volume #2 level 0.00112 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,183.68 > surface dust #2 size 8.2 > volume #2 level 0.002564 > volume #2 step 2 > volume #2 level 0.00112 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,183.68 [Repeated 1 time(s)] > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 183.68,183.68,183.68 > color single #2.1 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 183.68,183.68,183.68 > color single #2.1 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 183.68,183.68,183.68 > close #2 > open /Users/francescappadoo/Desktop/EVs/160Sa_450box_round8_popro_masked.mrc Opened 160Sa_450box_round8_popro_masked.mrc as #1, grid size 450,450,450, pixel 0.82, shown at level 0.0056, step 2, values float32 > volume flip #1 axis z Opened 160Sa_450box_round8_popro_masked.mrc z flip as #2, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 Surface Color: surface has no bounding box > color radial #1.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,184.5 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,184.5 > volume #1 level 0.001616 > volume #1 level 0.00112 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,184.5 [Repeated 3 time(s)] > close > open /Users/francescappadoo/Desktop/EVs/160ish_refine3D_r1.mrc Opened 160ish_refine3D_r1.mrc as #1, grid size 450,450,450, pixel 0.82, shown at level 0.00433, step 2, values float32 > volume flip #1 axis z Opened 160ish_refine3D_r1.mrc z flip as #2, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 > volume #2 step 2 > volume #2 level 0.00112 Surface Color: surface has no bounding box [Repeated 1 time(s)] > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,182.86 [Repeated 2 time(s)] > surface dust #2 size 8.2 > color radial #2.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,182.86 No map chosen for coloring [Repeated 2 time(s)] > open /Users/francescappadoo/Desktop/EVs/160ish_refine3D_r2.mrc Opened 160ish_refine3D_r2.mrc as #3, grid size 450,450,450, pixel 0.82, shown at level 0.00192, step 2, values float32 > volume flip #3 axis z Opened 160ish_refine3D_r2.mrc z flip as #4, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 > volume #4 level 0.00112 > color radial #4.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,183.68 > surface dust #4 size 8.2 Color zone shortcut requires 1 displayed atomic model and 1 map, got 0 atomic models, 1 maps. > surface dust #4 size 8.2 > open /Users/francescappadoo/Desktop/EVs/3vbu_RBF_symmates_178zflip.pdb Chain information for 3vbu_RBF_symmates_178zflip.pdb #5 --- Chain | Description A D E F G H I J | No description available B K L M N O P Q | No description available C R S T U V W X | No description available > hide #!4 models > volume flip #3 axis z Opened 160ish_refine3D_r2.mrc z flip as #6, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 > hide #!6 models > tile 1 model tiled > hide #!5 models > show #!6 models > hide #!6 models > close #6 > show #!4 models Error processing trigger ""graphics update"": You deleted or moved a volume file that is still open in ChimeraX. /Users/francescappadoo/Desktop/EVs/160ish_refine3D_r2.mrc To allow fast initial display of volume data ChimeraX does not read all data from the file when it is first opened, and will later read more data when needed. ChimeraX got an error trying to read the above file. > tile 1 model tiled > color radial #4.1 palette 114.6,#ff2600:141.8,#ff9300:168.9,#00f900 center > 184.5,184.5,183.68 > color radial #4.1 palette 50,#ff2600:100,#ff9300:168.9,#00f900 center > 184.5,184.5,183.68 The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > color radial #4.1 palette 50,#ff2600:100,#ff9300:180,#00f900 center > 184.5,184.5,183.68 > close > open /Users/francescappadoo/Desktop/EVs/300c18.mrc Opened 300c18.mrc as #1, grid size 450,450,450, pixel 0.82, shown at level 0.00363, step 2, values float32 > volume flip #1 axis z Opened 300c18.mrc z flip as #2, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 Traceback (most recent call last): File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume_viewer.py"", line 2740, in update_cb s.update_histogram(rm, m, rz, delay = 0) File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume_viewer.py"", line 2748, in update_histogram s = v.matrix_value_statistics(read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1736, in matrix_value_statistics matrices = self.displayed_matrices(read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1771, in displayed_matrices matrices.append(self.matrix(read_matrix)) ^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1254, in matrix m = self.region_matrix(r, read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1278, in region_matrix m = d.matrix(origin, size, step, progress, from_cache_only) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 41, in matrix mf = flip_matrix(m, self.axes) ^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 87, in flip_matrix m = m[::-1,:,:] ~^^^^^^^^^^ TypeError: 'NoneType' object is not subscriptable TypeError: 'NoneType' object is not subscriptable File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 87, in flip_matrix m = m[::-1,:,:] ~^^^^^^^^^^ See log for complete Python traceback. > close #2 > show #!1 models > volume flip #1 axis z Opened 300c18.mrc z flip as #2, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 Traceback (most recent call last): File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume_viewer.py"", line 2740, in update_cb s.update_histogram(rm, m, rz, delay = 0) File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume_viewer.py"", line 2748, in update_histogram s = v.matrix_value_statistics(read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1736, in matrix_value_statistics matrices = self.displayed_matrices(read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1771, in displayed_matrices matrices.append(self.matrix(read_matrix)) ^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1254, in matrix m = self.region_matrix(r, read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1278, in region_matrix m = d.matrix(origin, size, step, progress, from_cache_only) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 41, in matrix mf = flip_matrix(m, self.axes) ^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 87, in flip_matrix m = m[::-1,:,:] ~^^^^^^^^^^ TypeError: 'NoneType' object is not subscriptable TypeError: 'NoneType' object is not subscriptable File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 87, in flip_matrix m = m[::-1,:,:] ~^^^^^^^^^^ See log for complete Python traceback. > volume flip #1 axis z Opened 300c18.mrc z flip as #3, grid size 450,450,450, pixel 0.82, shown at step 1, values float32 Traceback (most recent call last): File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume_viewer.py"", line 2740, in update_cb s.update_histogram(rm, m, rz, delay = 0) File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume_viewer.py"", line 2748, in update_histogram s = v.matrix_value_statistics(read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1736, in matrix_value_statistics matrices = self.displayed_matrices(read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1771, in displayed_matrices matrices.append(self.matrix(read_matrix)) ^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1254, in matrix m = self.region_matrix(r, read_matrix) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map/volume.py"", line 1278, in region_matrix m = d.matrix(origin, size, step, progress, from_cache_only) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 41, in matrix mf = flip_matrix(m, self.axes) ^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 87, in flip_matrix m = m[::-1,:,:] ~^^^^^^^^^^ TypeError: 'NoneType' object is not subscriptable TypeError: 'NoneType' object is not subscriptable File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/map_filter/flip.py"", line 87, in flip_matrix m = m[::-1,:,:] ~^^^^^^^^^^ See log for complete Python traceback. OpenGL version: 4.1 Metal - 83.1 OpenGL renderer: Apple M1 OpenGL vendor: Apple 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 Air Model Identifier: MacBookAir10,1 Model Number: MGNA3B/A Chip: Apple M1 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 8 GB System Firmware Version: 8422.100.650 OS Loader Version: 8422.100.650 Software: System Software Overview: System Version: macOS 13.3 (22E252) Kernel Version: Darwin 22.4.0 Time since boot: 4 days, 4 hours, 25 minutes Graphics/Displays: Apple M1: Chipset Model: Apple M1 Type: GPU Bus: Built-In Total Number of Cores: 8 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes 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-Clipper: 0.23.1 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-ISOLDE: 1.8 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 Volume Data duplicate all ChimeraX