Execution of 'Structure' object's 'model_color' property raised AttributeError

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19044
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "C:/Users/galya/Desktop/综述要用的/PDB文件/LOC Os02g38050.4+.pdb"

LOC Os02g38050.4+.pdb title:  
SWISS-MODEL SERVER (https://swissmodel.expasy.org) LOC Os02g38050.4 [more
info...]  
  
Chain information for LOC Os02g38050.4+.pdb #1  
---  
Chain | Description  
A | No description available  
  

> view clip false

> show target m

> color byhetero

> hide #1 models

> show #1 models

> select #1

668 atoms, 680 bonds, 84 residues, 1 model selected  

> ~select #1

Nothing selected  

> show cartoons

[Repeated 1 time(s)]

> hide cartoons

> show cartoons

> coulombic

Using Amber 20 recommended default charges and atom types for standard
residues  
Coulombic values for LOC Os02g38050.4+.pdb_A SES surface #1.1: minimum,
-22.63, mean -2.84, maximum 10.53  
To also show corresponding color key, enter the above coulombic command and
add key true  

> color byhetero

> color bychain

> coulombic

Coulombic values for LOC Os02g38050.4+.pdb_A SES surface #1.1: minimum,
-22.63, mean -2.84, maximum 10.53  
To also show corresponding color key, enter the above coulombic command and
add key true  

> mlp

Map values for surface "LOC Os02g38050.4+.pdb_A SES surface": minimum -29.97,
mean -3.865, maximum 23.22  
To also show corresponding color key, enter the above mlp command and add key
true  

> color bychain

> surface style solid

> color light gray

> style stick

Changed 668 atom styles  

> rainbow

> color bfactor

668 atoms, 84 residues, 1 surfaces, atom bfactor range 0.42 to 0.84  

> color bychain

[Repeated 2 time(s)]

> style ball

Changed 668 atom styles  

> style stick

Changed 668 atom styles  

> style sphere

Changed 668 atom styles  

> nucleotides atoms

> style nucleic stick

Changed 0 atom styles  

> hbonds reveal true

44 hydrogen bonds found  

> interfaces ~solvent

0 buried areas:  

> color bynucleotide

> color bfactor

668 atoms, 84 residues, 1 surfaces, atom bfactor range 0.42 to 0.84  

> mlp

Map values for surface "LOC Os02g38050.4+.pdb_A SES surface": minimum -29.97,
mean -3.865, maximum 23.22  
To also show corresponding color key, enter the above mlp command and add key
true  

> style stick

Changed 668 atom styles  

> style stick

Changed 668 atom styles  

> style stick

Changed 668 atom styles  

> show atoms

> hide atoms

> style ball

Changed 668 atom styles  

> style stick

Changed 668 atom styles  

> style sphere

Changed 668 atom styles  

> set bgColor black

> set bgColor white

> lighting simple

> lighting soft

> lighting full

> lighting flat

> lighting shadows true intensity 0.5

> graphics silhouettes false

> lighting simple

> set bgColor white

> set bgColor gray

> set bgColor white

> view

[Repeated 6 time(s)]

> view orient

> ui tool show "Side View"

> view

> select /A

668 atoms, 680 bonds, 44 pseudobonds, 84 residues, 2 models selected  

> ui tool show "Show Sequence Viewer"

> sequence chain /A

Alignment identifier is 1/A  

> select /A:91

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:91-92

17 atoms, 16 bonds, 2 residues, 1 model selected  

> select /A:34-45,70-77

148 atoms, 148 bonds, 15 pseudobonds, 20 residues, 2 models selected  

> select /A:10-14,17-21,53-58,64-67,85-91

233 atoms, 232 bonds, 15 pseudobonds, 27 residues, 2 models selected  

> ui dockable false "Sequence Viewer"

> lighting shadows true

> color sel bychain

> close session

> open "C:\Users\galya\Desktop\综述要用的\PDB文件\LOC Os02g38050.4+.pdb" format pdb

LOC Os02g38050.4+.pdb title:  
SWISS-MODEL SERVER (https://swissmodel.expasy.org) LOC Os02g38050.4 [more
info...]  
  
Chain information for LOC Os02g38050.4+.pdb #1  
---  
Chain | Description  
A | No description available  
  

> select /A:9-92

668 atoms, 680 bonds, 84 residues, 1 model selected  

> sequence chain #1/A

Alignment identifier is 1/A  
[Repeated 1 time(s)]

> select /A:31

6 atoms, 5 bonds, 1 residue, 1 model selected  

> select /A:31-37

49 atoms, 48 bonds, 7 residues, 1 model selected  

> select /A:45

11 atoms, 11 bonds, 1 residue, 1 model selected  

> select /A:24-45

169 atoms, 172 bonds, 22 residues, 1 model selected  

> select /A:27

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select /A:27-92

518 atoms, 526 bonds, 66 residues, 1 model selected  

> select /A:27

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select /A:27

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select /A:27

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select /A:27

4 atoms, 3 bonds, 1 residue, 1 model selected  

> color sel medium blue

> select /A:27

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select /A:27

4 atoms, 3 bonds, 1 residue, 1 model selected  

> open "C:\Users\galya\Desktop\综述要用的\PDB文件\LOC Os02g38050.4+.pdb" format pdb

LOC Os02g38050.4+.pdb title:  
SWISS-MODEL SERVER (https://swissmodel.expasy.org) LOC Os02g38050.4 [more
info...]  
  
Chain information for LOC Os02g38050.4+.pdb #2  
---  
Chain | Description  
A | No description available  
  

> undo

[Repeated 2 time(s)]

> select #1/A:10-14,17-21,53-58,64-67,85-91

233 atoms, 232 bonds, 27 residues, 1 model selected  

> open C:\Users\galya\Desktop\NBR1和P62蛋白pdb文件\atNBR1-PB1FINAL.cxs format
> session

No such file/path: C:\Users\galya\Desktop\NBR1和P62蛋白pdb文件\atNBR1-PB1FINAL.cxs  

> open "C:\Users\galya\Desktop\综述要用的\PDB文件\LOC Os02g38050.4+.pdb" format pdb

LOC Os02g38050.4+.pdb title:  
SWISS-MODEL SERVER (https://swissmodel.expasy.org) LOC Os02g38050.4 [more
info...]  
  
Chain information for LOC Os02g38050.4+.pdb #3  
---  
Chain | Description  
A | No description available  
  

> select #1/A:13

9 atoms, 8 bonds, 1 residue, 1 model selected  

> color sel blue

> select #1/A:20

11 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:20

11 atoms, 10 bonds, 1 residue, 1 model selected  

> color sel blue

> select #1/A:19-20

20 atoms, 19 bonds, 2 residues, 1 model selected  

> select #1/A:19-20

20 atoms, 19 bonds, 2 residues, 1 model selected  

> color sel blue

> select #1/A:85-86

19 atoms, 18 bonds, 2 residues, 1 model selected  

> select #1/A:85-86

19 atoms, 18 bonds, 2 residues, 1 model selected  

> select #1/A:86

11 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:86

11 atoms, 10 bonds, 1 residue, 1 model selected  

> color sel blue

> select #1/A:19

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #1/A:19

9 atoms, 8 bonds, 1 residue, 1 model selected  

> color sel light gray

> select #1/A:59-60

17 atoms, 16 bonds, 2 residues, 1 model selected  

> select #1/A:59-63

37 atoms, 36 bonds, 5 residues, 1 model selected  

> color sel orange

> style sel sphere

Changed 37 atom styles  

> color sel bychain

> select #1/A:34-45,70-77

148 atoms, 148 bonds, 20 residues, 1 model selected  

> select #1/A:77-92

132 atoms, 133 bonds, 16 residues, 1 model selected  

> select #1/A:9-92

668 atoms, 680 bonds, 84 residues, 1 model selected  

> color sel bychain

> color sel bypolymer

> color sel byhetero

> coulombic sel

Using Amber 20 recommended default charges and atom types for standard
residues  
Coulombic values for LOC Os02g38050.4+.pdb_A SES surface #1.1: minimum,
-22.63, mean -2.84, maximum 10.53  
To also show corresponding color key, enter the above coulombic command and
add key true  

> color sel byhetero

> color sel bychain

> hide sel surfaces

> show sel surfaces

> hide sel surfaces

> show sel surfaces

> undo

> hide sel cartoons

> show sel cartoons

> ui tool show ViewDockX

No suitable models found for ViewDockX  

> transparency (#!1 & sel) 50

> surface style solid

> color (#!1 & sel) light gray

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke  
return self._func(self._name, data)  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\model_panel\tool.py", line 171, in <lambda>  
lambda *args, ft=self._fill_tree, ar=always_rebuild: ft(always_rebuild=ar))  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\model_panel\tool.py", line 207, in _fill_tree  
self._get_info(model, all_selected_models, part_selected_models)  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\model_panel\tool.py", line 296, in _get_info  
bg_color = self._model_color(obj)  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\model_panel\tool.py", line 319, in _model_color  
return model.model_color  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_  
return base.__getattr__(self, attr_name, look_in_class=base)  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_  
return look_in_class._attr_registration.get_attr(attr_name)  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 83, in get_attr  
raise AttributeError("Execution of '%s' object's '%s' property raised
AttributeError" % (self.class_.__name__, attr_name)) from None  
AttributeError: Execution of 'Structure' object's 'model_color' property
raised AttributeError  
  
Error processing trigger "new frame":  
AttributeError: Execution of 'Structure' object's 'model_color' property
raised AttributeError  
  
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 83, in get_attr  
raise AttributeError("Execution of '%s' object's '%s' property raised
AttributeError" % (self.class_.__name__, attr_name)) from None  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 516.40
OpenGL renderer: NVIDIA GeForce MX230/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Acer
Model: Aspire A315-55G
OS: Microsoft Windows 10 家庭中文版 (Build 19044)
Memory: 8,293,113,856
MaxProcessMemory: 137,438,953,344
CPU: 8 Intel(R) Core(TM) i7-10510U CPU @ 1.80GHz
OSLanguage: zh-CN
Locale: ('zh_CN', 'cp936')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    Babel: 2.9.1
    backcall: 0.2.0
    blockdiag: 2.0.1
    certifi: 2021.10.8
    cftime: 1.5.1.1
    charset-normalizer: 2.0.9
    ChimeraX-AddCharge: 1.2.2
    ChimeraX-AddH: 2.1.11
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.2.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.31
    ChimeraX-AtomicLibrary: 4.2
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AtomSearchLibrary: 1.0
    ChimeraX-AxesPlanes: 2.0
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.0
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.6.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.1
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.2
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.2
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5
    ChimeraX-CommandLine: 1.1.5
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.3
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.0
    ChimeraX-DistMonitor: 1.1.5
    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: 1.1
    ChimeraX-Hbonds: 2.1.2
    ChimeraX-Help: 1.2
    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
    ChimeraX-Label: 1.1
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.4
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.1
    ChimeraX-Map: 1.1
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1
    ChimeraX-Markers: 1.0
    ChimeraX-Mask: 1.0
    ChimeraX-MatchMaker: 2.0.4
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.4
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.2.6
    ChimeraX-ModelPanel: 1.2.1
    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: 2.0.2
    ChimeraX-OpenCommand: 1.7
    ChimeraX-PDB: 2.6.5
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-ResidueFit: 1.0
    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
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.4.6
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0
    ChimeraX-Shortcuts: 1.1
    ChimeraX-ShowAttr: 1.0
    ChimeraX-ShowSequences: 1.0
    ChimeraX-SideView: 1.0
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.6.1
    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: 1.1
    ChimeraX-ToolshedUtils: 1.2
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.13.7
    ChimeraX-uniprot: 2.2
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 1.0.1
    ChimeraX-VIPERdb: 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: 0.4.4
    comtypes: 1.1.10
    cxservices: 1.1
    cycler: 0.11.0
    Cython: 0.29.24
    decorator: 5.1.0
    docutils: 0.17.1
    filelock: 3.0.12
    funcparserlib: 0.3.6
    grako: 3.16.5
    h5py: 3.6.0
    html2text: 2020.1.16
    idna: 3.3
    ihm: 0.21
    imagecodecs: 2021.4.28
    imagesize: 1.3.0
    ipykernel: 5.5.5
    ipython: 7.23.1
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    Jinja2: 3.0.1
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    lxml: 4.6.3
    lz4: 3.1.3
    MarkupSafe: 2.0.1
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    matplotlib-inline: 0.1.3
    msgpack: 1.0.2
    netCDF4: 1.5.7
    networkx: 2.6.3
    numexpr: 2.8.0
    numpy: 1.21.2
    openvr: 1.16.801
    packaging: 21.3
    ParmEd: 3.2.0
    parso: 0.8.3
    pickleshare: 0.7.5
    Pillow: 8.3.2
    pip: 21.2.4
    pkginfo: 1.7.1
    prompt-toolkit: 3.0.23
    psutil: 5.8.0
    pycollada: 0.7.1
    pydicom: 2.1.2
    Pygments: 2.10.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.6
    PyQt5-commercial: 5.15.2
    PyQt5-sip: 12.8.1
    PyQtWebEngine-commercial: 5.15.2
    python-dateutil: 2.8.2
    pytz: 2021.3
    pywin32: 228
    pyzmq: 22.3.0
    qtconsole: 5.1.1
    QtPy: 1.11.3
    RandomWords: 0.3.0
    requests: 2.26.0
    scipy: 1.7.1
    setuptools: 57.5.0
    sfftk-rw: 0.7.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 4.2.0
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    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
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    tinyarray: 1.2.3
    tornado: 6.1
    traitlets: 5.1.1
    urllib3: 1.26.7
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.37.0
    wheel-filename: 1.3.0
    WMI: 1.5.1

[Eric Pettersen]

This error is from the old scheme of custom-attribute handling, which obscures the actual error. The same error in new versions (if not already fixed) will report the actual cause.