Grey and missing elements in plot

[greschd]

🔍 Before submitting the issue

• I have searched among the existing issues
• I am using a Python virtual environment

🐞 Description of the bug

When running the kiteboard example with only the max stress criterion, the plot contains grey elements, and other cells which are missing:

📝 Steps to reproduce

• Open kiteboard in WB, update
• Follow steps in https://composites.dpf.docs.pyansys.com/dev/intro.html#start-from-a-local-ansys-workbench-project
• Plot IRF

💻 Which operating system are you using?

Linux

🐍 Which Python version are you using?

3.8

📦 Installed packages

ansys-dpf-composites==0.1.dev0
ansys-dpf-core==0.7.2
ansys-dpf-gate==0.3.0
ansys-dpf-gatebin==0.3.0
ansys-grpc-dpf==0.7.0
anyio==3.6.2
appdirs==1.4.4
argon2-cffi==21.3.0
argon2-cffi-bindings==21.2.0
asttokens==2.2.1
attrs==22.2.0
backcall==0.2.0
beautifulsoup4==4.11.1
black==22.12.0
bleach==5.0.1
cachetools==5.2.1
certifi==2022.12.7
cffi==1.15.1
charset-normalizer==3.0.1
click==8.1.3
comm==0.1.2
contourpy==1.0.7
cycler==0.11.0
debugpy==1.6.5
decorator==5.1.1
defusedxml==0.7.1
entrypoints==0.4
executing==1.2.0
fastjsonschema==2.16.2
fonttools==4.38.0
google-api-core==2.11.0
google-api-python-client==2.73.0
google-auth==2.16.0
google-auth-httplib2==0.1.0
googleapis-common-protos==1.58.0
grpcio==1.51.1
httplib2==0.21.0
idna==3.4
imageio==2.24.0
importlib-metadata==6.0.0
importlib-resources==5.10.2
ipycanvas==0.13.1
ipyevents==2.0.1
ipykernel==6.20.2
ipympl==0.9.2
ipython==8.8.0
ipython-genutils==0.2.0
ipyvtklink==0.2.3
ipywidgets==7.7.2
jedi==0.18.2
Jinja2==3.1.2
jsonschema==4.17.3
jupyter-client==7.4.9
jupyter-core==5.1.3
jupyter-events==0.6.3
jupyter-server==2.1.0
jupyter-server-terminals==0.4.4
jupyterlab-pygments==0.2.2
jupyterlab-widgets==1.1.1
kiwisolver==1.4.4
MarkupSafe==2.1.2
matplotlib==3.6.3
matplotlib-inline==0.1.6
mistune==2.0.4
mypy-extensions==0.4.3
nbclassic==0.4.8
nbclient==0.7.2
nbconvert==7.2.8
nbformat==5.7.3
nest-asyncio==1.5.6
notebook==6.5.2
notebook-shim==0.2.2
numpy==1.23.5
packaging==23.0
pandocfilters==1.5.0
parso==0.8.3
pathspec==0.10.3
pexpect==4.8.0
pickleshare==0.7.5
Pillow==9.4.0
pkgutil-resolve-name==1.3.10
platformdirs==2.6.2
prometheus-client==0.15.0
prompt-toolkit==3.0.36
protobuf==4.21.12
psutil==5.9.4
ptyprocess==0.7.0
pure-eval==0.2.2
pyasn1==0.4.8
pyasn1-modules==0.2.8
pycparser==2.21
Pygments==2.14.0
pyparsing==3.0.9
pyrsistent==0.19.3
python-dateutil==2.8.2
python-json-logger==2.0.4
pyvista==0.36.1
PyYAML==6.0
pyzmq==25.0.0
requests==2.28.2
rfc3339-validator==0.1.4
rfc3986-validator==0.1.1
rsa==4.9
scooby==0.7.0
Send2Trash==1.8.0
six==1.16.0
sniffio==1.3.0
soupsieve==2.3.2.post1
stack-data==0.6.2
terminado==0.17.1
tinycss2==1.2.1
tomli==2.0.1
tornado==6.2
tqdm==4.64.1
traitlets==5.8.1
typing-extensions==4.4.0
uritemplate==4.1.1
urllib3==1.26.14
vtk==9.2.5
wcwidth==0.2.6
webencodings==0.5.1
websocket-client==1.4.2
widgetsnbextension==3.6.1
zipp==3.11.0

[janvonrickenbach]

The following bugs have been reported to dpf core:

ansys/pydpf-core#766
ansys/pydpf-core#765

[janvonrickenbach]

ansys/pydpf-core#766 which caused the missing elements, is now fixed.

[roosre]

Hi @greschd , is this issue resolved with the recent improvements in vtk? Thanks, René

[greschd]

No, I can still reproduce this issue.

Updated the main dependencies with

poetry lock; poetry install --all-extras --sync

and VTK with

pip install vtk -U --pre --index-url https://gitlab.kitware.com/api/v4/projects/13/packages/pypi/simple

The tessellation looks cleaner, but the grey and missing elements are still there:

Click to show updated pip freeze

accessible-pygments==0.0.4
alabaster==0.7.13
-e git+https://github.com/pyansys/pydpf-composites.git@ebb67a27ddfe1ed6882938c01e007cb3b3399d65#egg=ansys_dpf_composites
ansys-dpf-core==0.8.1
ansys-dpf-gate==0.3.1
ansys-dpf-gatebin==0.3.1
ansys-grpc-dpf==0.7.1
ansys-sphinx-theme==0.9.9
astroid==2.15.5
Babel==2.12.1
beautifulsoup4==4.12.2
bleach==6.0.0
build==0.8.0
cachetools==5.3.1
certifi==2023.5.7
cfgv==3.3.1
charset-normalizer==3.1.0
colorama==0.4.6
contourpy==1.1.0
coverage==7.2.7
cycler==0.11.0
dill==0.3.6
distlib==0.3.6
docutils==0.19
exceptiongroup==1.1.1
filelock==3.12.2
fonttools==4.40.0
google-api-core==2.11.1
google-api-python-client==2.91.0
google-auth==2.17.3
google-auth-httplib2==0.1.0
googleapis-common-protos==1.59.1
grpcio==1.56.0
httplib2==0.22.0
identify==2.5.24
idna==3.4
imagesize==1.4.1
importlib-metadata==6.7.0
iniconfig==2.0.0
isort==5.12.0
jaraco.classes==3.2.3
Jinja2==3.1.2
keyring==24.2.0
kiwisolver==1.4.4
lazy-object-proxy==1.9.0
markdown-it-py==3.0.0
MarkupSafe==2.1.3
matplotlib==3.7.1
mccabe==0.7.0
mdurl==0.1.2
more-itertools==9.1.0
mypy==1.4.1
mypy-extensions==1.0.0
nodeenv==1.8.0
numpy==1.24.4
numpydoc==1.5.0
packaging==23.1
pep517==0.13.0
Pillow==10.0.0
pkginfo==1.9.6
platformdirs==3.8.0
pluggy==1.2.0
pooch==1.7.0
pre-commit==3.3.3
protobuf==4.23.3
psutil==5.9.5
pyasn1==0.5.0
pyasn1-modules==0.3.0
pydata-sphinx-theme==0.13.3
Pygments==2.15.1
pylint==2.17.4
pypandoc==1.11
pyparsing==3.1.0
pytest==7.4.0
pytest-cov==3.0.0
python-dateutil==2.8.2
pyvista==0.40.0
pywin32-ctypes==0.2.2
PyYAML==6.0
readme-renderer==40.0
requests==2.31.0
requests-toolbelt==1.0.0
rfc3986==2.0.0
rich==13.4.2
rsa==4.9
scipy==1.9.3
scooby==0.7.2
six==1.16.0
snowballstemmer==2.2.0
soupsieve==2.4.1
Sphinx==5.3.0
sphinx-copybutton==0.4.0
sphinx-gallery==0.11.1
sphinx_autodoc_typehints==1.20.1
sphinx_design==0.3.0
sphinxcontrib-applehelp==1.0.4
sphinxcontrib-devhelp==1.0.2
sphinxcontrib-htmlhelp==2.0.1
sphinxcontrib-jsmath==1.0.1
sphinxcontrib-qthelp==1.0.3
sphinxcontrib-serializinghtml==1.1.5
tomli==2.0.1
tomlkit==0.11.8
tqdm==4.65.0
twine==4.0.2
typing_extensions==4.7.1
uritemplate==4.1.1
urllib3==2.0.3
virtualenv==20.23.1
vtk==9.2.20230701.dev0
webencodings==0.5.1
wrapt==1.15.0
zipp==3.15.0

[janvonrickenbach]

@greschd @roosre The missing/gray element is due to dpf-core. I should be fixed as soon as the next version is released.

[greschd]

@janvonrickenbach with the current master, I get the missing element being fixed, but not the grey ones:

Installed with pip install git+https://github.com/ansys/pydpf-core.git.

[greschd]

Plotting with nan_color="#ffffff", opacity=0.5 options reveals that the data is there, but obscured by other elements:

I think this means it's not really a bug, but we should consider features that make this case easier to detect and deal with:

• Can the .plot() option be restricted to plot only the parts of the mesh on which the field is defined? Maybe this already exists, but I didn't find it with a cursory search..
• Can the opacity be set for the NaN values only? Setting an RGBA color (e.g. #ffffff00) on the nan_color doesn't seem to have any effect.
• It's also strange that the NaN values completely obscure the field values, from both sides. In most other cases when data is obscured due to z-buffering, they are at least partially visible. Maybe this can be improved?
  Observation: The mesh elements without data are Quad8 and Point1, whereas the field contains Quad4 and Tri3.
• Other ideas?

[janvonrickenbach]

This could be related to ansys/pydpf-core#925 @rlagha @greschd