id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 9079 Graphics crash, macOS 13.0.1, Intel Iris Plus Graphics 645 chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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All rights reserved. How to cite UCSF ChimeraX > open 5vms Summary of feedback from opening 5vms fetched from pdb --- note | Fetching compressed mmCIF 5vms from http://files.rcsb.org/download/5vms.cif 5vms title: CryoEM structure of Xenopus KCNQ1 channel [more info...] Chain information for 5vms #1 --- Chain | Description | UniProt A | Potassium voltage-gated channel subfamily KQT member 1 | KCNQ1_XENLA B | Calmodulin | CALM_HUMAN Non-standard residues in 5vms #1 --- CA — calcium ion 5vms mmCIF Assemblies --- 1| complete point assembly 2| point asymmetric unit 3| point asymmetric unit, std point frame > sym #1 assembly 1 copies true > close #1 > view orient > zoom 1.1 > turn x 180 > surface /a > hide /a cartoons > hide /b > show Ca > hide pbonds > cartoon style modeHelix tube > lighting gentle > set bgColor white > set silhouettes true > set sihuettedepth 0.02 Expected a keyword > set silhouetteDepthJump 0.02 > set silhouetteDepthJump 0.03 > size ions atomRadius 1.6 Changed 12 atom radii > color modify ions hue +45 > rainbow palette pubu-5 > help palette > raibow polymers palette PuBu-5 Unknown command: raibow polymers palette PuBu-5 > rainbow polymers palette pubu-5 > save ""/Users/mildredkissai/Desktop/tutorial from youtube.cxs"" > save /Users/mildredkissai/Desktop/image1.png supersample 3 > save /Users/mildredkissai/Desktop/test_image.png width 1344 height 903 > supersample 3 > close > open 4eiy Summary of feedback from opening 4eiy fetched from pdb --- notes | Fetching compressed mmCIF 4eiy from http://files.rcsb.org/download/4eiy.cif Fetching CCD ZMA from http://ligand-expo.rcsb.org/reports/Z/ZMA/ZMA.cif Fetching CCD NA from http://ligand-expo.rcsb.org/reports/N/NA/NA.cif Fetching CCD CLR from http://ligand-expo.rcsb.org/reports/C/CLR/CLR.cif Fetching CCD OLA from http://ligand-expo.rcsb.org/reports/O/OLA/OLA.cif Fetching CCD OLC from http://ligand-expo.rcsb.org/reports/O/OLC/OLC.cif Fetching CCD OLB from http://ligand-expo.rcsb.org/reports/O/OLB/OLB.cif Fetching CCD PEG from http://ligand-expo.rcsb.org/reports/P/PEG/PEG.cif 4eiy title: Crystal structure of the chimeric protein of A2aAR-BRIL in complex with ZM241385 at 1.8A resolution [more info...] Chain information for 4eiy #1 --- Chain | Description | UniProt A | Adenosine receptor A2a/Soluble cytochrome b562 chimera | AA2AR_HUMAN Non-standard residues in 4eiy #1 --- CLR — cholesterol NA — sodium ion OLA — oleic acid OLB — (2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate OLC — (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate (1-Oleoyl-R-glycerol) PEG — di(hydroxyethyl)ether ZMA — 4-{2-[(7-amino-2-furan-2-yl[1,2,4]triazolo[1,5-a][1,3,5]triazin-5-yl)amino]ethyl}phenol > set bgColor black > set silhouettes false > select /A:-1-307 2308 atoms, 2370 bonds, 299 residues, 1 model selected > select clear > select :ZMA 25 atoms, 28 bonds, 1 residue, 1 model selected > view sel > view > view sel > view orient > view sel > view > view sel > view > color grey > view sel > color sel lime > color sel byhetero > select sel @ show sel atoms > color sel byhetero > label sel text ""{0.name} {0.number}{0.insertion_code}"" > select solvent 177 atoms, 177 residues, 1 model selected > ~label sel residues > select clear > ui tool show ""Side View"" > select up 2 atoms, 1 bond, 1 residue, 1 model selected > select up 25 atoms, 28 bonds, 1 residue, 1 model selected > hbonds sel reveal true The following atoms were skipped as donors/acceptors due to missing heavy-atom bond partners: /A ARG 293 NE 10 hydrogen bonds found > ~hbonds > ui tool show H-Bonds > hbonds sel reveal true log true The following atoms were skipped as donors/acceptors due to missing heavy-atom bond partners: /A ARG 293 NE Finding intermodel H-bonds Finding intramodel H-bonds Constraints relaxed by 0.4 angstroms and 20 degrees Models used: 1 4eiy 10 H-bonds H-bonds (donor, acceptor, hydrogen, D..A dist, D-H..A dist): /A ASN 253 ND2 /A ZMA 2401 N17 no hydrogen 3.168 N/A /A ASN 253 ND2 /A ZMA 2401 O25 no hydrogen 3.011 N/A /A ZMA 2401 N10 /A HOH 2524 O no hydrogen 2.820 N/A /A ZMA 2401 N15 /A GLU 169 OE2 no hydrogen 2.790 N/A /A ZMA 2401 N15 /A ASN 253 OD1 no hydrogen 2.793 N/A /A ZMA 2401 O4 /A HOH 2668 O no hydrogen 2.900 N/A /A HOH 2521 O /A ZMA 2401 N19 no hydrogen 2.810 N/A /A HOH 2583 O /A ZMA 2401 O4 no hydrogen 3.533 N/A /A HOH 2585 O /A ZMA 2401 N12 no hydrogen 2.730 N/A /A HOH 2668 O /A ZMA 2401 O4 no hydrogen 2.900 N/A 10 hydrogen bonds found > ~hbonds > ui tool show Contacts > contacts ignoreHiddenModels true reveal true 2930 contacts > contacts hide Expected a keyword > contacts deletee Expected a keyword > contacts delete > ui tool show Contacts > contacts sel ignoreHiddenModels true reveal true 66 contacts > contacts delete > ui tool show Contacts > contacts sel ignoreHiddenModels true reveal true log true Allowed overlap: -0.4 H-bond overlap reduction: 0.4 Ignore contacts between atoms separated by 4 bonds or less Detect intra-residue contacts: False Detect intra-molecule contacts: True 66 contacts atom1 atom2 overlap distance /A ZMA 2401 C24 /A MET 177 CE 0.288 3.352 /A ZMA 2401 C24 /A HIS 250 CE1 0.180 3.340 /A ZMA 2401 N10 /A PHE 168 CB 0.105 3.415 /A ZMA 2401 O25 /A MET 177 CE 0.095 3.205 /A ZMA 2401 C9 /A HOH 2524 O 0.078 3.262 /A ZMA 2401 C23 /A LEU 85 CD2 0.052 3.588 /A ZMA 2401 N15 /A MET 270 CE 0.050 3.470 /A ZMA 2401 C11 /A PHE 168 CB 0.024 3.466 /A ZMA 2401 C21 /A MET 177 CE -0.021 3.511 /A ZMA 2401 N12 /A HOH 2585 O -0.030 2.730 /A ZMA 2401 C23 /A TRP 246 CZ3 -0.030 3.550 /A ZMA 2401 C6 /A GLU 169 CD -0.052 3.692 /A ZMA 2401 N16 /A PHE 168 CE2 -0.056 3.456 /A ZMA 2401 C1 /A LEU 267 CD1 -0.064 3.704 /A ZMA 2401 C14 /A PHE 168 CD2 -0.080 3.450 /A ZMA 2401 N15 /A GLU 169 CD -0.093 3.613 /A ZMA 2401 N16 /A PHE 168 CD2 -0.100 3.500 /A ZMA 2401 N19 /A HOH 2521 O -0.110 2.810 /A ZMA 2401 C8 /A MET 270 CB -0.111 3.871 /A ZMA 2401 N10 /A HOH 2524 O -0.120 2.820 /A ZMA 2401 C22 /A LEU 85 CD2 -0.122 3.762 /A ZMA 2401 N15 /A GLU 169 CG -0.124 3.644 /A ZMA 2401 N15 /A GLU 169 OE2 -0.130 2.790 /A ZMA 2401 N13 /A PHE 168 CD2 -0.131 3.531 /A ZMA 2401 N15 /A ASN 253 OD1 -0.133 2.793 /A ZMA 2401 C21 /A LEU 249 CD2 -0.135 3.625 /A ZMA 2401 C23 /A MET 177 CE -0.144 3.784 /A ZMA 2401 C9 /A HOH 2541 O -0.146 3.486 /A ZMA 2401 C9 /A PHE 168 CB -0.152 3.912 /A ZMA 2401 N12 /A ILE 274 CD1 -0.191 3.711 /A ZMA 2401 N17 /A PHE 168 CE2 -0.191 3.591 /A ZMA 2401 C20 /A LEU 249 CG -0.203 3.693 /A ZMA 2401 C22 /A LEU 249 CD2 -0.207 3.847 /A ZMA 2401 C21 /A LEU 249 CG -0.211 3.701 /A ZMA 2401 C2 /A LEU 267 CD1 -0.227 3.867 /A ZMA 2401 C24 /A HIS 250 ND1 -0.231 3.631 /A ZMA 2401 N10 /A ILE 274 CD1 -0.247 3.767 /A ZMA 2401 C20 /A LEU 249 CD2 -0.262 3.752 /A ZMA 2401 N12 /A PHE 168 CG -0.263 3.513 /A ZMA 2401 C1 /A HOH 2541 O -0.263 3.483 /A ZMA 2401 C14 /A MET 270 CE -0.264 3.754 /A ZMA 2401 C5 /A GLU 169 CD -0.269 3.909 /A ZMA 2401 N12 /A PHE 168 CB -0.272 3.792 /A ZMA 2401 N13 /A MET 270 CE -0.279 3.799 /A ZMA 2401 C18 /A PHE 168 CD2 -0.286 3.656 /A ZMA 2401 N17 /A ASN 253 ND2 -0.288 3.168 /A ZMA 2401 C5 /A HIS 264 CE1 -0.295 3.815 /A ZMA 2401 C22 /A MET 177 CE -0.297 3.937 /A ZMA 2401 C22 /A HOH 2521 O -0.308 3.528 /A ZMA 2401 C2 /A HOH 2541 O -0.315 3.535 /A ZMA 2401 O25 /A LEU 249 CG -0.344 3.644 /A ZMA 2401 C11 /A PHE 168 CD2 -0.347 3.717 /A ZMA 2401 C11 /A PHE 168 CG -0.348 3.568 /A ZMA 2401 N13 /A GLU 169 CG -0.351 3.871 /A ZMA 2401 O25 /A ASN 253 ND2 -0.351 3.011 /A ZMA 2401 C8 /A MET 270 CG -0.365 4.125 /A ZMA 2401 N19 /A LEU 249 CD2 -0.371 3.891 /A ZMA 2401 N17 /A LEU 249 CG -0.374 3.894 /A ZMA 2401 C5 /A HOH 2668 O -0.375 3.595 /A ZMA 2401 C22 /A TRP 246 CZ3 -0.380 3.900 /A ZMA 2401 O4 /A HOH 2668 O -0.380 2.900 /A ZMA 2401 C18 /A PHE 168 CE2 -0.386 3.756 /A ZMA 2401 C6 /A MET 270 CG -0.386 4.026 /A ZMA 2401 C9 /A HOH 2525 O -0.388 3.728 /A ZMA 2401 C14 /A PHE 168 CE2 -0.392 3.762 /A ZMA 2401 C6 /A GLU 169 OE2 -0.399 3.579 66 contacts > save ""/Users/mildredkissai/Desktop/tutorial from youtube 2.cxs"" > contacts delete ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 INTEL-20.2.44 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 645 OpenGL vendor: Intel Inc. Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro15,4 Processor Name: Quad-Core Intel Core i5 Processor Speed: 1.4 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 256 KB L3 Cache: 6 MB Hyper-Threading Technology: Enabled Memory: 16 GB System Firmware Version: 1916.40.8.0.0 (iBridge: 20.16.420.0.0,0) OS Loader Version: 564.40.4~27 Software: System Software Overview: System Version: macOS 13.0.1 (22A400) Kernel Version: Darwin 22.1.0 Time since boot: 23 hours, 20 minutes Graphics/Displays: Intel Iris Plus Graphics 645: Chipset Model: Intel Iris Plus Graphics 645 Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x3ea6 Revision ID: 0x0001 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: Yes Connection Type: Internal LG IPS FULLHD: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 @ 60.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: Mirror: Off Online: Yes Rotation: Supported Connection Type: Thunderbolt/DisplayPort Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.1.0 Babel: 2.11.0 backcall: 0.2.0 blockdiag: 3.0.0 build: 0.8.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 2.1.1 ChimeraX-AddCharge: 1.4 ChimeraX-AddH: 2.2.1 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.6 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.41.5 ChimeraX-AtomicLibrary: 8.0.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3 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: 2.7.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.1 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.4 ChimeraX-Clipper: 0.19.0 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.2 ChimeraX-CommandLine: 1.2.4 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.5 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.1 ChimeraX-DistMonitor: 1.3 ChimeraX-DockPrep: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.2 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 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: 1.1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.1 ChimeraX-MatchMaker: 2.0.9 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.8 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.6 ChimeraX-ModelPanel: 1.3.6 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.1 ChimeraX-MouseModes: 1.1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.9.1 ChimeraX-PDB: 2.6.8 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-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 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 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.7.2 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 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.1.3 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.24.3 ChimeraX-uniprot: 2.2.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.1.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.1 ChimeraX-WebServices: 1.1.0 ChimeraX-Zone: 1.0.1 colorama: 0.4.5 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.32 debugpy: 1.6.4 decorator: 5.1.1 docutils: 0.19 entrypoints: 0.4 executing: 1.2.0 filelock: 3.7.1 fonttools: 4.38.0 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.7.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.33 imagecodecs: 2022.7.31 imagesize: 1.4.1 importlib-metadata: 5.1.0 ipykernel: 6.15.3 ipython: 8.4.0 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.1.2 jupyter-client: 7.3.4 jupyter-core: 5.1.0 kiwisolver: 1.4.4 line-profiler: 3.5.1 lxml: 4.9.1 lz4: 4.0.2 MarkupSafe: 2.1.1 matplotlib: 3.5.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.0 networkx: 2.8.5 numexpr: 2.8.4 numpy: 1.23.1 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: 9.2.0 pip: 22.2.2 pkginfo: 1.8.3 platformdirs: 2.5.4 prompt-toolkit: 3.0.33 psutil: 5.9.1 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.12.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2022.6 pyzmq: 24.0.1 qtconsole: 5.3.1 QtPy: 2.3.0 RandomWords: 0.4.0 requests: 2.28.1 scipy: 1.9.0 setuptools: 65.1.1 setuptools-scm: 7.0.5 sfftk-rw: 0.7.2 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 5.1.1 sphinx-autodoc-typehints: 1.19.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 tifffile: 2022.7.31 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.2 traitlets: 5.3.0 typing-extensions: 4.4.0 urllib3: 1.26.13 wcwidth: 0.2.5 webcolors: 1.12 wheel: 0.37.1 wheel-filename: 1.4.1 zipp: 3.11.0 }}} " defect closed normal Graphics nonchimerax all ChimeraX