glUniformMatrix4fv: invalid operation

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19041
ChimeraX Version: 1.1 (2020-09-09 22:22:27 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.1 (2020-09-09)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open C:\Users\adamw\Downloads\6vyb.pdb format pdb

6vyb.pdb title:  
Sars-cov-2 spike ectodomain structure (open state) [more info...]  
  
Chain information for 6vyb.pdb #1  
---  
Chain | Description  
A B C | spike glycoprotein  
  
Non-standard residues in 6vyb.pdb #1  
---  
NAG — 2-acetamido-2-deoxy-β-D-glucopyranose  
  

> ui tool show "Basic Actions"

Alignment identifier is 1  

> set bgColor white

> lighting simple

> lighting soft

> lighting full

> lighting simple

> set bgColor gray

> lighting simple

> set bgColor white

> view

> view

> view

> ui tool show "Basic Actions"

> view

> ui tool show "Basic Actions"

Alignment identifier is 1  

> style sphere

Changed 22365 atom styles  

> color bychain

> color byhetero

> color bychain

> color byhetero

> select /A

7533 atoms, 7716 bonds, 24 pseudobonds, 976 residues, 2 models selected  

> select /A

7533 atoms, 7716 bonds, 24 pseudobonds, 976 residues, 2 models selected  
Alignment identifier is 1/A  

> view

> view

> view

> view

> view sel

> view

> view sel

> view

> view sel

> hide sel atoms

> hide sel surfaces

> style sel stick

Changed 89 atom styles  

> style sel ball

Changed 89 atom styles  

> view

> view sel

> view

> view

> view

> view

> view sel

> close session

> open C:/Users/adamw/Downloads/6vsb.pdb

6vsb.pdb title:  
Prefusion 2019-ncov spike glycoprotein with A single receptor-binding domain
up [more info...]  
  
Chain information for 6vsb.pdb #1  
---  
Chain | Description  
A B C | spike glycoprotein  
  
Non-standard residues in 6vsb.pdb #1  
---  
NAG — 2-acetamido-2-deoxy-β-D-glucopyranose (N-acetyl-β-D-glucosamine;
2-acetamido-2-deoxy-β-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-acetyl-D-glucosamine)  
  

> ui tool show "Basic Actions"

> select /A

7437 atoms, 7614 bonds, 26 pseudobonds, 968 residues, 2 models selected  
Alignment identifier is 1/A  

> view sel

> close session

> open C:/Users/adamw/Downloads/6vge.pdb

6vge.pdb title:  
Crystal structure of the DNA binding domains of human transcription factor
erg, human RUNX2 bound to core binding factor β (CBFB), In complex with 16MER
DNA cagaggatgtggcttc [more info...]  
  
Chain information for 6vge.pdb #1  
---  
Chain | Description  
A | transforming protein ERG  
B | DNA (5'- D(P*CP*ap*GP*ap*GP*GP*ap*TP*GP*TP*GP*GP*CP*TP*TP*C)-3')  
C | DNA (5'- D(P*GP*ap*ap*GP*CP*CP*ap*CP*ap*TP*CP*CP*TP*CP*TP*G)-3')  
D | runt-related transcription factor 2  
G | core-binding factor subunit β  
  

> ui tool show "Basic Actions"

An error occurred in drawing the scene. Redrawing graphics is now stopped to
avoid a continuous stream of error messages. To restart graphics use the
command "graphics restart" after changing the settings that caused the error.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\core\updateloop.py", line 73, in draw_new_frame  
view.draw(check_for_changes = False)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\view.py", line 165, in draw  
self._draw_scene(camera, drawings)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\view.py", line 229, in _draw_scene  
draw_depth(r, opaque_drawings)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 1510, in draw_depth  
draw_opaque(r, drawings)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 1486, in draw_opaque  
_draw_multiple(drawings, renderer, Drawing.OPAQUE_DRAW_PASS)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 1499, in _draw_multiple  
d.draw(renderer, draw_pass)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 739, in draw  
self.draw_self(renderer, draw_pass)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 746, in draw_self  
self._draw_geometry(renderer, opaque_only = any_transp)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 777, in _draw_geometry  
shader = r.shader(sopt)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\opengl.py", line 588, in shader  
p = self._opengl_shader(options)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\opengl.py", line 691, in _opengl_shader  
self._use_shader(p)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\opengl.py", line 615, in _use_shader  
self.set_projection_matrix()  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\opengl.py", line 707, in set_projection_matrix  
p.set_matrix('projection_matrix', pm)  
File "C:\Program Files\ChimeraX 1.1\bin\lib\site-
packages\chimerax\graphics\opengl.py", line 2688, in set_matrix  
GL.glUniformMatrix4fv(self.uniform_id(name), 1, False, matrix)  
File "src\latebind.pyx", line 39, in
OpenGL_accelerate.latebind.LateBind.__call__  
File "src\wrapper.pyx", line 318, in
OpenGL_accelerate.wrapper.Wrapper.__call__  
File "src\wrapper.pyx", line 311, in
OpenGL_accelerate.wrapper.Wrapper.__call__  
File "src\errorchecker.pyx", line 58, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
OpenGL.error.GLError: GLError(  
err = 1282,  
description = b'invalid operation',  
baseOperation = glUniformMatrix4fv,  
pyArgs = (  
1,  
1,  
False,  
<OpenGL.arrays.lists.c_float_Array_4_Array_4 object at 0x000002563D0F68C8>,  
),  
cArgs = (  
1,  
1,  
False,  
<OpenGL.arrays.lists.c_float_Array_4_Array_4 object at 0x000002563D0F68C8>,  
),  
cArguments = (  
1,  
1,  
False,  
<OpenGL.arrays.lists.c_float_Array_4_Array_4 object at 0x000002563D0F68C8>,  
)  
)  
  




OpenGL version: 3.3.13596 Core Profile Forward-Compatible Context 20.10.40 27.20.11040.11
OpenGL renderer: AMD Radeon(TM) Vega 8 Graphics
OpenGL vendor: ATI Technologies Inc.
Manufacturer: HP
Model: HP All-in-One 24-dp0xxx
OS: Microsoft Windows 10 Home (Build 19041)
Memory: 10,650,955,776
MaxProcessMemory: 137,438,953,344
CPU: 8 AMD Ryzen 5 3500U 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]

Not enough info to debug.

Invalid Operation opengl error in glUniformMatrix4fv(). Only documented reasons for that error that might apply are no current shader program or shader program does not have a uniform with the given index (1 in the case of this command). The parent in the call stack had just called glUseProgram() so it is hard to see how there could be no shader program. The code checks if the shader capabilities include a projection matrix. It could be some shader is not correctly stating it has no projection matrix. But I would expect that error to happen often.

The user had just closed the session, opened a PDB, and shown Basic Actions when the error occurred. Seems likely they clicked either a chain letter to select a chain or an icon to hide/show atoms, ribbons or surface. But all those log commands in ChimeraX 1.1 and there is no logged commands. So it is mysterious. The traceback appears to start in update loop, like the normal frame draw timer callback.