Contour level mouse mode: UnboundLocalError: local variable 'levels'

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.18362
ChimeraX Version: 1.1 (2020-09-09 22:22:27 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.1 (2020-09-09)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  
ERROR: You must give at least one requirement to install (see "pip help
install")  
WARNING: You are using pip version 20.2.2; however, version 20.3.1 is
available.  
You should consider upgrading via the
'C:\Users\Ari\Documents\Chimera\bin\ChimeraX.exe -m pip install --upgrade pip'
command.  
  

> open C:/Users/Ari/Downloads/CCAN_APO_complex.pdb

Chain information for CCAN_APO_complex.pdb #1  
---  
Chain | Description  
H | No description available  
I | No description available  
K | No description available  
L | No description available  
N | No description available  
O | No description available  
P | No description available  
Q | No description available  
U | No description available  
Y | No description available  
Z | No description available  
  

> open C:/Users/Ari/Downloads/CCAN_APO_complex.mrc

MRC file is truncated. Failed reading 1 values, type int32  

> open C:/Users/Ari/Downloads/CCAN_APO_complex.mrc

MRC file is truncated. Failed reading 1 values, type int32  

> open C:/Users/Ari/Downloads/CCAN_APO_complex(1).mrc

Opened CCAN_APO_complex(1).mrc, grid size 320,320,320, pixel 1.09, shown at
level 0.00773, step 2, values float32  

> hide #!1 models

> show #!1 models

> hide #!2 models

> select map

Expected an objects specifier or a keyword  

> select main

18162 atoms, 18425 bonds, 58 pseudobonds, 2415 residues, 2 models selected  

> rainbow sel

> show sel cartoons

> hide sel surfaces

> hide sel cartoons

> style sel stick

Changed 18162 atom styles  

> style sel sphere

Changed 18162 atom styles  

> style sel stick

Changed 18162 atom styles  

> nucleotides sel atoms

> style nucleic & sel stick

Changed 0 atom styles  

> show sel cartoons

> style sel stick

Changed 18162 atom styles  

> style sel ball

Changed 18162 atom styles  

> nucleotides sel atoms

> style nucleic & sel stick

Changed 0 atom styles  

> style sel stick

Changed 18162 atom styles  

> show sel atoms

> hide sel atoms

> select main

18162 atoms, 18425 bonds, 58 pseudobonds, 2415 residues, 2 models selected  

> undo

> undo

> undo

> undo

> undo

> undo

> undo

> undo

> undo

> undo

> color sel byhetero

> color sel bychain

> color sel byhetero

> coulombic sel

Don't know how to assign charges to the following residue types: UNK  

> color sel bychain

> color sel bychain

> style sel sphere

Changed 18162 atom styles  

> rainbow sel

> style sel stick

Changed 18162 atom styles  

> show sel cartoons

> show sel atoms

> hide sel atoms

> hide sel atoms

> show sel surfaces

> hide sel atoms

> hide sel atoms

> transparency sel 50

> transparency sel 0

> transparency sel 75

> hide sel cartoons

> show sel atoms

> hide sel atoms

> show sel cartoons

> transparency cartoon 75

Missing or invalid "percent" argument: Expected a number  

> transparency 0

> transparency 80

> transparency 0

> volume #2 level 0.007728

> volume #2 level 0.005495

> volume #2 level 0.002705

> undo

> undo

> undo

> undo

> hide #!2 models

> ~select #1

11 models selected  

> select #1

18162 atoms, 18425 bonds, 58 pseudobonds, 2415 residues, 2 models selected  

> ui mousemode right "contour level"

> ui mousemode right "contour level"

> ui mousemode right select

> ui mousemode right "contour level"

> undo

> undo

> toolshed show

> ui mousemode right "contour level"

> ui mousemode right "contour level"

> volume #2 level -0.0231

> volume #2 level -0.05791

> volume #2 level 0.001246

> volume #2 level 0.01057

> hide #!2 models

> show #!2 models

> hide #!1 models

> volume #2 level 0.01648

> volume #2 level -0.009012

> volume #2 level 0.003732

> volume #2 level 0.007463

> volume #2 level 0.01834

> volume #2 level 0.006219

> volume #2 level -0.006215

> volume #2 level 0.002489

> volume #2 level 0.008395

> volume #2 level 0.01865

> show #!1 models

> volume #2 level 0.01896

> hide #!1 models

> volume #2 level 0.03606

> volume #2 level 0.01896

> show #!1 models

> volume #2 level 0.02207

> hide #!1 models

> hide #!2 models

> show #!2 models

> show #!1 models

> show sel cartoons

> hide sel surfaces

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> volume #2 level -0.003417

> volume #2 level -0.001185

> volume #2 level 0.0004895

> volume #2 level 0.01541

> volume #2 level 0.0294

> volume #2 level 0.02225

> volume #2 level 0.008882

> volume #2 level 0.00795

> transparency 50

> transparency 30

> color (#!1 & sel) magenta

> rainbow sel

> transparency 50

> volume #2 level 0.02349

> volume #2 level 0.005463

> volume #2 level 0.0151

> volume #2 level 0.02101

> volume #2 level 0.01386

> ui tool show "Volume Viewer"

> ui tool show "Show Volume Menu"

> volume #2 level 0.01417

> ui tool show "Show Volume Menu"

> ui tool show "Segment Map"

> start volume filter

Unknown command: start volume filter  

> start

Unknown command: start  

> toolshed show

> vop gaussian #2 sdev 3.27

> undo

> redo

> hide #!3 models

> show #!2 models

> volume #2 level 0.01137

> volume #2 level 0.0139

> hide #2.1 models

> show #!3 models

> transparency 30

> transparency 30

Traceback (most recent call last):  
File "C:\Users\Ari\Documents\Chimera\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 637, in <lambda>  
gw.mouseReleaseEvent = lambda e, s=self: s._dispatch_mouse_event(e,
"mouse_up")  
File "C:\Users\Ari\Documents\Chimera\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 535, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "C:\Users\Ari\Documents\Chimera\bin\lib\site-
packages\chimerax\map\mouselevel.py", line 68, in mouse_up  
self.log_volume_command()  
File "C:\Users\Ari\Documents\Chimera\bin\lib\site-
packages\chimerax\map\mouselevel.py", line 98, in log_volume_command  
log_volume_level_command(v)  
File "C:\Users\Ari\Documents\Chimera\bin\lib\site-
packages\chimerax\map\mouselevel.py", line 135, in log_volume_level_command  
command = 'volume #%s %s' % (v.id_string, levels)  
UnboundLocalError: local variable 'levels' referenced before assignment  
  
UnboundLocalError: local variable 'levels' referenced before assignment  
  
File "C:\Users\Ari\Documents\Chimera\bin\lib\site-
packages\chimerax\map\mouselevel.py", line 135, in log_volume_level_command  
command = 'volume #%s %s' % (v.id_string, levels)  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.13541 Core Profile Forward-Compatible Context 25.20.14136.0
OpenGL renderer: AMD Radeon(TM) Vega 3 Graphics
OpenGL vendor: ATI Technologies Inc.
Manufacturer: Acer
Model: Aspire A515-43
OS: Microsoft Windows 10 Home (Build 18363)
Memory: 3,693,752,320
MaxProcessMemory: 137,438,953,344
CPU: 4 AMD Ryzen 3 3200U with Radeon Vega Mobile Gfx  "
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.9
Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    Babel: 2.8.0
    backcall: 0.2.0
    blockdiag: 2.0.1
    certifi: 2020.6.20
    chardet: 3.0.4
    ChimeraX-AddH: 2.1.1
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.1
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.6.1
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AxesPlanes: 2.0
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 1.0.1
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.0
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.0
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.1
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.0
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-CommandLine: 1.1.3
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.1
    ChimeraX-CoreFormats: 1.0
    ChimeraX-coulombic: 1.0.1
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-DataFormats: 1.0
    ChimeraX-Dicom: 1.0
    ChimeraX-DistMonitor: 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: 2.0
    ChimeraX-Help: 1.0
    ChimeraX-HKCage: 1.0
    ChimeraX-IHM: 1.0
    ChimeraX-ImageFormats: 1.0
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0
    ChimeraX-Label: 1.0
    ChimeraX-ListInfo: 1.0
    ChimeraX-Log: 1.1.1
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Map: 1.0.1
    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: 1.1
    ChimeraX-MDcrds: 2.0
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.0
    ChimeraX-mmCIF: 2.2
    ChimeraX-MMTF: 2.0
    ChimeraX-Modeller: 1.0
    ChimeraX-ModelPanel: 1.0
    ChimeraX-ModelSeries: 1.0
    ChimeraX-Mol2: 2.0
    ChimeraX-Morph: 1.0
    ChimeraX-MouseModes: 1.0
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0
    ChimeraX-OpenCommand: 1.2.1
    ChimeraX-PDB: 2.1
    ChimeraX-PDBBio: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0
    ChimeraX-PubChem: 2.0
    ChimeraX-Read-Pbonds: 1.0
    ChimeraX-Registration: 1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-ResidueFit: 1.0
    ChimeraX-RestServer: 1.0
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.2
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SeqView: 2.2
    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
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.0.4
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-Struts: 1.0
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0
    ChimeraX-SwapRes: 2.0
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.0
    ChimeraX-ToolshedUtils: 1.0
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.2.3
    ChimeraX-uniprot: 2.0
    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: 0.29.20
    decorator: 4.4.2
    distlib: 0.3.1
    docutils: 0.16
    filelock: 3.0.12
    funcparserlib: 0.3.6
    gdcm: 2.8.8
    grako: 3.16.5
    h5py: 2.10.0
    html2text: 2020.1.16
    idna: 2.10
    ihm: 0.16
    imagecodecs: 2020.5.30
    imagecodecs-lite: 2020.1.31
    imagesize: 1.2.0
    ipykernel: 5.3.0
    ipython: 7.15.0
    ipython-genutils: 0.2.0
    jedi: 0.17.2
    Jinja2: 2.11.2
    jupyter-client: 6.1.3
    jupyter-core: 4.6.3
    kiwisolver: 1.2.0
    line-profiler: 2.1.2
    lxml: 4.5.1
    MarkupSafe: 1.1.1
    matplotlib: 3.2.1
    msgpack: 1.0.0
    netifaces: 0.10.9
    networkx: 2.4
    numexpr: 2.7.1
    numpy: 1.18.5+mkl
    numpydoc: 1.0.0
    openvr: 1.12.501
    packaging: 20.4
    parso: 0.7.1
    pickleshare: 0.7.5
    Pillow: 7.1.2
    pip: 20.2.2
    pkginfo: 1.5.0.1
    prompt-toolkit: 3.0.7
    psutil: 5.7.0
    pycollada: 0.7.1
    pydicom: 2.0.0
    Pygments: 2.6.1
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 2.4.7
    PyQt5-commercial: 5.12.3
    PyQt5-sip: 4.19.19
    PyQtWebEngine-commercial: 5.12.1
    python-dateutil: 2.8.1
    pytz: 2020.1
    pywin32: 228
    pyzmq: 19.0.2
    qtconsole: 4.7.4
    QtPy: 1.9.0
    RandomWords: 0.3.0
    requests: 2.24.0
    scipy: 1.4.1
    setuptools: 49.4.0
    sfftk-rw: 0.6.6.dev0
    six: 1.15.0
    snowballstemmer: 2.0.0
    sortedcontainers: 2.2.2
    Sphinx: 3.1.1
    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: 2020.6.3
    tinyarray: 1.2.2
    tornado: 6.0.4
    traitlets: 5.0.4
    urllib3: 1.25.10
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.34.2
    WMI: 1.5.1

[Tom Goddard]

Fixed.

Volume was shown but surface and image models were undisplayed. Contour level mouse mode didn't handle that when logging a command. No command should be logged since only displayed levels are changed.