id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 4583 wrapped C/C++ object of type QScreen has been deleted chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.2 (2021-04-27 05:33:30 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.2 (2021-04-27) © 2016-2021 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/walter/Desktop/Object3.pdb Summary of feedback from opening /Users/walter/Desktop/Object3.pdb --- warnings | Ignored bad PDB record found on line 1 REMARK YASARA ************************************************************* Ignored bad PDB record found on line 2 REMARK YASARA * * Ignored bad PDB record found on line 3 REMARK YASARA * Y A S A R A * Ignored bad PDB record found on line 4 REMARK YASARA * * Ignored bad PDB record found on line 5 REMARK YASARA * Yet Another Scientific Artificial Reality Application * 14 messages similar to the above omitted Chain information for Object3.pdb #1 --- Chain | Description A | No description available B | No description available > show cartoons > style stick Changed 365 atom styles > style sphere Changed 365 atom styles > style ball Changed 365 atom styles > select 365 atoms, 374 bonds, 44 residues, 1 model selected > style sel sphere Changed 365 atom styles > style sel sphere Changed 365 atom styles > hide sel cartoons > show sel cartoons > show sel atoms > hide sel atoms > set bgColor white > lighting full > lighting soft > lighting simple > mlp sel Map values for surface ""Object3.pdb_A SES surface"": minimum -26.45, mean -4.005, maximum 20.8 Map values for surface ""Object3.pdb_B SES surface"": minimum -20.83, mean 0.485, maximum 22.15 To also show corresponding color key, enter the above mlp command and add key true > color bfactor sel 365 atoms, 44 residues, 2 surfaces, atom bfactor range 46.3 to 283 > coulombic sel Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for Object3.pdb_A SES surface #1.1: minimum, -16.51, mean 0.04, maximum 11.56 Coulombic values for Object3.pdb_B SES surface #1.2: minimum, -7.89, mean 2.16, maximum 13.38 To also show corresponding color key, enter the above coulombic command and add key true > coulombic sel Coulombic values for Object3.pdb_A SES surface #1.1: minimum, -16.51, mean 0.04, maximum 11.56 Coulombic values for Object3.pdb_B SES surface #1.2: minimum, -7.89, mean 2.16, maximum 13.38 To also show corresponding color key, enter the above coulombic command and add key true > mlp sel Map values for surface ""Object3.pdb_A SES surface"": minimum -26.45, mean -4.005, maximum 20.8 Map values for surface ""Object3.pdb_B SES surface"": minimum -20.83, mean 0.485, maximum 22.15 To also show corresponding color key, enter the above mlp command and add key true > coulombic sel Coulombic values for Object3.pdb_A SES surface #1.1: minimum, -16.51, mean 0.04, maximum 11.56 Coulombic values for Object3.pdb_B SES surface #1.2: minimum, -7.89, mean 2.16, maximum 13.38 To also show corresponding color key, enter the above coulombic command and add key true > rainbow sel > color sel bychain > color sel byhetero > show sel cartoons > show sel cartoons > show sel atoms > hide sel atoms > style sel stick Changed 365 atom styles > style sel sphere Changed 365 atom styles > style sel ball Changed 365 atom styles > style sel sphere Changed 365 atom styles > style sel stick Changed 365 atom styles > rainbow sel Alignment identifier is 1/A Alignment identifier is 1/B Destroying pre-existing alignment with identifier 1/A Alignment identifier is 1/A Destroying pre-existing alignment with identifier 1/B Alignment identifier is 1/B > interfaces sel & ~solvent 1 buried areas: A B 485 > lighting flat > lighting shadows true intensity 0.5 > lighting flat > lighting shadows true intensity 0.5 > lighting simple > lighting shadows true > lighting shadows false > graphics silhouettes false > lighting soft > hide sel surfaces > color sel bychain > lighting soft > lighting full > lighting flat > lighting simple > lighting shadows true > lighting flat > lighting shadows true intensity 0.5 > graphics silhouettes false > set bgColor black > set bgColor gray > set bgColor white > ui tool show ""Side View"" > open ""/Users/walter/Dropbox/Nanoretinal/Documents/Martin > Sperrle/kalign-I20210430-173325-0892-28755752-p2m.clustalw"" Summary of feedback from opening /Users/walter/Dropbox/Nanoretinal/Documents/Martin Sperrle/kalign-I20210430-173325-0892-28755752-p2m.clustalw --- notes | Alignment identifier is kalign-I20210430-173325-0892-28755752-p2m.clustalw Associated Object3.pdb chain A to SEQ_ID_06 with 0 mismatches Associated Object3.pdb chain B to SEQ_ID_06 with 0 mismatches Showing conservation header (""seq_conservation"" residue attribute) for alignment kalign-I20210430-173325-0892-28755752-p2m.clustalw Opened 8 sequences from kalign-I20210430-173325-0892-28755752-p2m.clustalw > preset ""overall look"" publication Preset expands to these ChimeraX commands: set bg white graphics silhouettes t > preset ""overall look"" interactive Preset expands to these ChimeraX commands: ~set bg graphics silhouettes f > preset ""molecular surfaces"" ""ghostly white"" Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > preset ""molecular surfaces"" ""atomic coloring (transparent)"" Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color fromatoms targ s trans 70 > preset ""molecular surfaces"" ""chain id coloring (opaque)"" Changed 0 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color bychain targ s trans 0 > preset cartoons/nucleotides licorice/ovals Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect cartoon style protein modeh default arrows f x round width 1 thick 1 cartoon style nucleic x round width 1.6 thick 1.6 nucleotides tube/slab shape ellipsoid > preset ""initial styles"" ""space-filling (chain colors)"" Preset implemented in Python; no expansion to individual ChimeraX commands available. > preset ""initial styles"" ""space-filling (single color)"" Preset implemented in Python; no expansion to individual ChimeraX commands available. > preset ""molecular surfaces"" ""atomic coloring (transparent)"" Changed 365 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color fromatoms targ s trans 70 > preset ""initial styles"" cartoon Preset implemented in Python; no expansion to individual ChimeraX commands available. > preset ""initial styles"" ""original look"" Preset implemented in Python; no expansion to individual ChimeraX commands available. > preset cartoons/nucleotides ribbons/slabs Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect nucleotides tube/slab shape box > preset cartoons/nucleotides cylinders/stubs Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect cartoon style protein modeh tube rad 2 sides 24 thick 0.6 cartoon style nucleic x round width 1.6 thick 1.6 nucleotides stubs > preset cartoons/nucleotides licorice/ovals Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect cartoon style protein modeh default arrows f x round width 1 thick 1 cartoon style nucleic x round width 1.6 thick 1.6 nucleotides tube/slab shape ellipsoid > preset cartoons/nucleotides ribbons/slabs Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect nucleotides tube/slab shape box > preset ""overall look"" publication Preset expands to these ChimeraX commands: set bg white graphics silhouettes t > preset ""overall look"" interactive Preset expands to these ChimeraX commands: ~set bg graphics silhouettes f > preset ""initial styles"" ""space-filling (single color)"" Preset implemented in Python; no expansion to individual ChimeraX commands available. > close session Traceback (most recent call last): File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 932, in close_action.triggered.connect(lambda *, s=self, sess=session: s.file_close_cb(sess)) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 652, in file_close_cb run(session, 'close session') File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/core/commands/run.py"", line 36, in run results = command.run(text, log=log, return_json=return_json) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/core/commands/cli.py"", line 2852, in run result = ci.function(session, **kw_args) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/std_commands/close.py"", line 60, in close_session session.reset() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/core/session.py"", line 529, in reset sm.reset_state(container, self) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/manager.py"", line 252, in reset_state alignment._destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/alignment.py"", line 603, in _destroy self._notify_observers(self.NOTE_DESTROYED, None) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/alignment.py"", line 652, in _notify_observers recipient.alignment_notification(note_name, note_data) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seq-view/tool.py"", line 474, in alignment_notification self.delete() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seq-view/tool.py"", line 512, in delete ToolInstance.delete(self) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/core/tools.py"", line 154, in delete self.session.ui.remove_tool(self) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 345, in remove_tool self.main_window.remove_tool(tool_instance) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 725, in remove_tool tw._destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 2049, in _destroy self.__toolkit.destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 2189, in destroy sbar.destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/statusbar.py"", line 51, in destroy v.delete() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 438, in delete self.make_current() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 478, in make_current return self._opengl_context.make_current() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 99, in make_current qc = self._initialize_context() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 125, in _initialize_context qc.setScreen(self._screen) RuntimeError: wrapped C/C++ object of type QScreen has been deleted RuntimeError: wrapped C/C++ object of type QScreen has been deleted File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 125, in _initialize_context qc.setScreen(self._screen) See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/core/triggerset.py"", line 130, in invoke return self._func(self._name, data) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/alignment.py"", line 635, in _mmap_mod_cb self.disassociate(self._sseq_to_chain[match_map.struct_seq], demotion=True) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/alignment.py"", line 392, in disassociate self.session.alignments.destroy_alignment(self) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/manager.py"", line 108, in destroy_alignment alignment._destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/alignment.py"", line 603, in _destroy self._notify_observers(self.NOTE_DESTROYED, None) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seqalign/alignment.py"", line 652, in _notify_observers recipient.alignment_notification(note_name, note_data) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seq-view/tool.py"", line 474, in alignment_notification self.delete() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/seq-view/tool.py"", line 512, in delete ToolInstance.delete(self) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/core/tools.py"", line 154, in delete self.session.ui.remove_tool(self) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 345, in remove_tool self.main_window.remove_tool(tool_instance) File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 725, in remove_tool tw._destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 2049, in _destroy self.__toolkit.destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/gui.py"", line 2189, in destroy sbar.destroy() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/ui/statusbar.py"", line 51, in destroy v.delete() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 438, in delete self.make_current() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 478, in make_current return self._opengl_context.make_current() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 99, in make_current qc = self._initialize_context() File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 125, in _initialize_context qc.setScreen(self._screen) RuntimeError: wrapped C/C++ object of type QScreen has been deleted Error processing trigger ""modified"": RuntimeError: wrapped C/C++ object of type QScreen has been deleted File ""/Applications/ChimeraX-1.2.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/opengl.py"", line 125, in _initialize_context qc.setScreen(self._screen) See log for complete Python traceback. OpenGL version: 4.1 Metal - 71.5.9 OpenGL renderer: Apple M1 OpenGL vendor: AppleHardware: Hardware Overview: Model Name: MacBook Air Model Identifier: MacBookAir10,1 Processor Name: Unknown Processor Speed: 2.4 GHz Number of Processors: 1 Total Number of Cores: 8 L2 Cache (per Core): 4 MB Memory: 16 GB Software: System Software Overview: System Version: macOS 11.3 (20E232) Kernel Version: Darwin 20.4.0 Time since boot: 2 days 8:20 Graphics/Displays: Apple M1: Chipset Model: Apple M1 Type: GPU Bus: Built-In Total Number of Cores: 8 Vendor: Apple (0x106b) Metal Family: Supported, Metal GPUFamily Apple 7 Displays: Color LCD: Resolution: 2880 x 1800 UI Looks like: 1440 x 900 @ 60.00Hz Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: No Connection Type: Internal Locale: (None, 'UTF-8') PyQt5 5.15.2, Qt 5.15.2 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.2 Babel: 2.9.0 backcall: 0.2.0 blockdiag: 2.0.1 certifi: 2020.12.5 cftime: 1.4.1 chardet: 3.0.4 ChimeraX-AddCharge: 1.0 ChimeraX-AddH: 2.1.6 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.13.3 ChimeraX-AtomicLibrary: 3.1.2 ChimeraX-AtomSearch: 2.0 ChimeraX-AtomSearchLibrary: 1.0 ChimeraX-AxesPlanes: 2.0 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 1.1 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.5.2 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.1 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.1 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.2.1 ChimeraX-CommandLine: 1.1.3 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.2 ChimeraX-CoreFormats: 1.0 ChimeraX-coulombic: 1.1.1 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0 ChimeraX-DataFormats: 1.1 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1.1 ChimeraX-DistUI: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0 ChimeraX-FunctionKey: 1.0 ChimeraX-Geometry: 1.1 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.0 ChimeraX-Hbonds: 2.1 ChimeraX-Help: 1.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.0 ChimeraX-ImageFormats: 1.1 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-Label: 1.0 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.2 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.0.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.0 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 1.2 ChimeraX-MDcrds: 2.2 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.3 ChimeraX-MMTF: 2.1 ChimeraX-Modeller: 1.0.1 ChimeraX-ModelPanel: 1.0.1 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.1 ChimeraX-OpenCommand: 1.5 ChimeraX-PDB: 2.4.1 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.0.1 ChimeraX-PubChem: 2.0.1 ChimeraX-ReadPbonds: 1.0 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.4 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SeqView: 2.3 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.0 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.0.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.3.1 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-Struts: 1.0 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.0.1 ChimeraX-ToolshedUtils: 1.2 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.7.3 ChimeraX-uniprot: 2.1 ChimeraX-UnitCell: 1.0 ChimeraX-ViewDockX: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0 ChimeraX-WebServices: 1.0 ChimeraX-Zone: 1.0 colorama: 0.4.3 comtypes: 1.1.7 cxservices: 1.0 cycler: 0.10.0 Cython: 0.29.21 decorator: 5.0.7 distlib: 0.3.1 docutils: 0.16 filelock: 3.0.12 funcparserlib: 0.3.6 grako: 3.16.5 h5py: 2.10.0 html2text: 2020.1.16 idna: 2.10 ihm: 0.17 imagecodecs: 2020.5.30 imagesize: 1.2.0 ipykernel: 5.3.4 ipython: 7.18.1 ipython-genutils: 0.2.0 jedi: 0.17.2 Jinja2: 2.11.2 jupyter-client: 6.1.7 jupyter-core: 4.7.1 kiwisolver: 1.3.1 line-profiler: 2.1.2 lxml: 4.6.2 lz4: 3.1.0 MarkupSafe: 1.1.1 matplotlib: 3.3.2 msgpack: 1.0.0 netCDF4: 1.5.4 networkx: 2.5 numexpr: 2.7.3 numpy: 1.19.2 numpydoc: 1.1.0 openvr: 1.14.1501 packaging: 20.9 ParmEd: 3.2.0 parso: 0.7.1 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 7.2.0 pip: 21.0.1 pkginfo: 1.5.0.1 prompt-toolkit: 3.0.18 psutil: 5.7.2 ptyprocess: 0.7.0 pycollada: 0.7.1 pydicom: 2.0.0 Pygments: 2.7.1 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 2.4.7 PyQt5-commercial: 5.15.2 PyQt5-sip: 12.8.1 PyQtWebEngine-commercial: 5.15.2 python-dateutil: 2.8.1 pytz: 2021.1 pyzmq: 22.0.3 qtconsole: 4.7.7 QtPy: 1.9.0 RandomWords: 0.3.0 requests: 2.24.0 scipy: 1.5.2 setuptools: 50.3.2 sfftk-rw: 0.6.7.dev1 six: 1.15.0 snowballstemmer: 2.1.0 sortedcontainers: 2.2.2 Sphinx: 3.2.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 2.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 1.0.3 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.4 suds-jurko: 0.6 tables: 3.6.1 tifffile: 2020.9.3 tinyarray: 1.2.3 tornado: 6.1 traitlets: 5.0.5 urllib3: 1.25.11 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.36.0 wheel-filename: 1.3.0 }}} " defect closed normal Graphics fixed all ChimeraX