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NeurodataWithoutBorders / ccf-widget

MIT License
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ccfwidgets fails to render #31

Open rcpeene opened 1 year ago

rcpeene commented 1 year ago

Running ccfwidgets with something very close to the default usage. Passing in an array of points to the CCFWidget constructor yields an error that I don't fully understand. I'm not familiar enough with the itk widgets to parse through it. This is with ccfwidget==0.5.3 and itkwidgets==0.32.6. A similar error with different error text is thrown with itkwidgets==0.32.4

The line: ccf = CCFWidget(markers=[points]) where points is a numpy array with shape (1920, 3)

ccf = CCFWidget(markers=[points])
---------------------------------------------------------------------------
RuntimeError                              Traceback (most recent call last)
Cell In[7], line 1
----> 1 ccf = CCFWidget(markers=[points])

File /opt/hostedtoolcache/Python/3.9.17/x64/lib/python3.9/site-packages/ccfwidget/widget_ccf.py:122, in CCFWidget.__init__(self, tree, swc_morphologies, markers, marker_sizes, marker_opacities, marker_colors, selected_allen_ids, selected_acronyms, rotate, **kwargs)
    118 camera = np.array([[ 1.3441567e+03, -2.1723846e+04,  1.7496496e+04],
    119                    [ 6.5500000e+03,  3.9750000e+03,  5.6750000e+03],
    120                    [ 3.6606243e-01, -4.4908229e-01, -8.1506038e-01]], dtype=np.float32)
    121 size_limit_3d = [256,256,256]
--> 122 self.itk_viewer = view(image=self._image,
    123 label_image=self._label_image,
    124 opacity_gaussians=opacity_gaussians,
    125 label_image_blend=0.65,
    126 point_sets=markers.copy(),
    127 camera=camera,
    128 ui_collapsed=True,
    129 shadow=False,
    130 size_limit_3d=size_limit_3d,
    131 background=(0.85,)*3,
    132 units="μm",
    133 gradient_opacity=0.1)
    134 # Todo: initialization should work
    135 self.itk_viewer.opacity_gaussians = opacity_gaussians

File /opt/hostedtoolcache/Python/3.9.17/x64/lib/python3.9/site-packages/itkwidgets/widget_viewer.py:1090, in view(image, label_image, label_image_names, label_image_weights, label_image_blend, cmap, lut, select_roi, interpolation, gradient_opacity, opacity_gaussians, channels, slicing_planes, shadow, blend_mode, point_sets, point_set_colors, point_set_opacities, point_set_representations, point_set_sizes, geometries, geometry_colors, geometry_opacities, ui_collapsed, rotate, annotations, axes, mode, **kwargs)
   1087     if image is None and len(images):  # only one image is rendered
   1088         image = images[0]
-> 1090 viewer = Viewer(image=image,
   1091 label_image=label_image,
   1092 label_image_names=label_image_names,
   1093 label_image_blend=label_image_blend,
   1094 label_image_weights=label_image_weights,
   1095 cmap=cmap,
   1096 lut=lut,
   1097 select_roi=select_roi,
   1098 interpolation=interpolation,
   1099 gradient_opacity=gradient_opacity,
   1100 opacity_gaussians=opacity_gaussians,
   1101 slicing_planes=slicing_planes,
   1102 shadow=shadow,blend_mode=blend_mode,
   1103 point_sets=point_sets,
   1104 point_set_colors=point_set_colors,
   1105 point_set_opacities=point_set_opacities,
   1106 point_set_representations=point_set_representations,
   1107 point_set_sizes=point_set_sizes,
   1108 geometries=geometries,geometry_colors=geometry_colors,
   1109 geometry_opacities=geometry_opacities,
   1110 rotate=rotate,ui_collapsed=ui_collapsed,
   1111 annotations=annotations,axes=axes,mode=mode,
   1112 **kwargs)
   1113 return viewer

File /opt/hostedtoolcache/Python/3.9.17/x64/lib/python3.9/site-packages/itkwidgets/widget_viewer.py:403, in Viewer.__init__(self, **kwargs)
    401         if size[dim] > self.size_limit_3d[dim]:
    402             self._downsampling = True
--> 403 self._update_rendered_image()
    404 if self._downsampling:
    405     self.observe(self._on_roi_changed, ['roi'])

File /opt/hostedtoolcache/Python/3.9.17/x64/lib/python3.9/site-packages/itkwidgets/widget_viewer.py:520, in Viewer._update_rendered_image(self)
    517         return
    519 if self.image:
--> 520     self.shrinker.UpdateLargestPossibleRegion()
    521 if self.label_image:
    522     self.label_image_shrinker.UpdateLargestPossibleRegion()

RuntimeError: /work/ITK-source/ITK/Modules/Core/Common/src/itkDataObject.cxx:[367](https://github.com/AllenInstitute/openscope_databook/actions/runs/5283149469/jobs/9559011685#step:9:368):
Requested region is (at least partially) outside the largest possible region.
----------------------------- Captured stderr call -----------------------------
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: suspicious return value (3) from SVDC
/work/ITK-source/ITK/Modules/ThirdParty/VNL/src/vxl/core/vnl/algo/vnl_svd.hxx: M is 3x3
M = [ ...
             nan              nan              nan 
             nan              nan              nan 
             nan              nan              nan  ]
rcpeene commented 1 year ago

This only appears to be an issue when running tests on my github ubuntu runner. On my windows machine this problem does not occur.

bendichter commented 1 year ago

@rcpeene this sounds like it could be an issue due to different dependencies. Could you provide pip freeze on the two different systems?

rcpeene commented 1 year ago

I have what I believe to be the same relevant dependencies on both. Here's my local machine 

accessible-pygments==0.0.4
aiohttp==3.8.3
aiosignal==1.3.1
alabaster==0.7.12
anyio==3.6.2
appdirs==1.4.4
argon2-cffi==21.3.0
argon2-cffi-bindings==21.2.0
argschema==2.0.2
arrow==1.2.3
asciitree==0.3.3
asttokens==2.2.0
async-timeout==4.0.2        
attrs==21.4.0
Babel==2.10.3
backcall==0.2.0
beautifulsoup4==4.11.1      
bg-atlasapi==1.0.2
bg-space==0.6.0
bidsschematools==0.6.0      
bleach==5.0.1
boto3==1.17.21
botocore==1.20.112
bqplot==0.12.36
brainrender==2.0.5.5
bs4==0.0.1
cachetools==4.2.4
ccfwidget==0.5.3
certifi==2022.9.24
cffi==1.15.1
chardet==3.0.4
charset-normalizer==2.1.1
ci-info==0.3.0
click==8.1.3
click-didyoumean==0.3.0
cloudpickle==2.2.0
colorama==0.4.6
colorcet==3.0.1
commonmark==0.9.1
contourpy==1.0.6
coverage==7.2.1
cycler==0.11.0
dandi==0.46.6
dandischema==0.7.1
dask==2022.11.1
databook-utils @ file:///C:/Users/carter.peene/Desktop/Projects/openscope_databook
debugpy==1.6.4
decorator==5.1.1
defusedxml==0.7.1
Deprecated==1.2.13
distro==1.8.0
dnspython==2.2.1
docutils==0.17.1
elephant==0.12.0
email-validator==1.3.0
entrypoints==0.4
etelemetry==0.3.0
exceptiongroup==1.1.0
execnet==1.9.0
executing==1.2.0
fasteners==0.18
fastjsonschema==2.16.2
fonttools==4.38.0
fqdn==1.5.1
frozenlist==1.3.3
fscacher==0.2.0
fsspec==2022.11.0
future==0.18.2
gast==0.4.0
gitdb==4.0.9
GitPython==3.1.27
Glymur==0.8.19
google==3.0.0
greenlet==1.1.3
h5py==3.7.0
hdmf==3.6.1
humanize==4.4.0
idna==3.4
imagecodecs==2022.9.26
imageio==2.22.4
imagesize==1.4.1
importlib-metadata==4.13.0
importlib-resources==5.10.0
iniconfig==2.0.0
interleave==0.2.1
ipycanvas==0.13.1
ipydatagrid==1.1.14
ipydatawidgets==4.3.2
ipyevents==2.0.1
ipykernel==6.17.1
ipympl==0.9.2
ipysheet==0.5.0
ipython==8.7.0
ipython-genutils==0.2.0
ipytree==0.2.2
ipyvolume==0.6.0a10
ipyvtklink==0.2.3
ipyvue==1.8.0
ipyvuetify==1.8.4
ipywebrtc==0.6.0
ipywidgets==7.7.2
isoduration==20.11.0
itk-core==5.3.0
itk-filtering==5.3.0
itk-meshtopolydata==0.10.0
itk-numerics==5.3.0
itkwidgets==0.32.4
jaraco.classes==3.2.3
jedi==0.18.2
Jinja2==3.1.2
JIT==0.0.1
jmespath==0.10.0
joblib==1.2.0
jsonpointer==2.3
jsonschema==3.2.0
jupyter==1.0.0
jupyter-book==0.13.0
jupyter-cache==0.4.3
jupyter-console==6.4.4
jupyter-server==1.23.3
jupyter-server-mathjax==0.2.6
jupyter-sphinx==0.3.2
jupyter_client==7.4.7
jupyter_core==5.1.0
jupyterlab-pygments==0.2.2
jupyterlab-widgets==1.1.1
K3D==2.7.4
keyring==23.11.0
keyrings.alt==4.2.0
kiwisolver==1.4.4
latexcodec==2.0.1
linkify-it-py==1.0.3
llvmlite==0.39.1
locket==1.0.0
loguru==0.6.0
lxml==4.9.1
markdown-it-py==1.1.0
MarkupSafe==2.1.1
marshmallow==3.0.0rc6
matplotlib==3.6.2
matplotlib-inline==0.1.6
matplotlib-venn==0.11.9
mdit-py-plugins==0.2.8
meshio==5.3.4
mistune==0.8.4
more-itertools==9.0.0
morphapi==0.1.7
MorphIO==3.3.3
mpl-interactions==0.22.0
msgpack==1.0.4
multidict==6.0.2
myst-nb==0.13.2
myst-parser==0.15.2
myterial==1.2.1
natsort==8.2.0
nbclassic==0.4.8
nbclient==0.5.13
nbconvert==6.5.4
nbdime==3.1.1
nbformat==5.7.0
nbmake==1.3.5
ndx-events==0.2.0
ndx-grayscalevolume==0.0.2
ndx-icephys-meta==0.1.0
ndx-spectrum==0.2.2
neo==0.12.0
nest-asyncio==1.5.6
networkx==2.8.8
neurom==3.2.2
notebook==6.5.2
notebook_shim==0.2.2
numba==0.56.4
numcodecs==0.10.2
numexpr==2.8.3
numpy==1.22.4
nwbinspector==0.4.20
nwbwidgets==0.10.0
opencv-python==4.6.0.66
ophys-nway-matching @ git+https://github.com/AllenInstitute/ophys_nway_matching@545504ab55922717ab623f8ede2c521a60aa1458
packaging==21.3
pandas==1.5.2
pandocfilters==1.5.0
param==1.12.2
parso==0.8.3
partd==1.3.0
patsy==0.5.3
pickleshare==0.7.5
Pillow==9.3.0
pkgutil_resolve_name==1.3.10
platformdirs==2.5.4
plotly==5.11.0
pluggy==1.0.0
prometheus-client==0.15.0
prompt-toolkit==3.0.33
psutil==5.9.4
psycopg2-binary==2.9.5
pure-eval==0.2.2
py==1.11.0
py2vega==0.6.1
pybtex==0.24.0
pybtex-docutils==1.0.2
pycparser==2.21
pycryptodomex==3.16.0
pyct==0.4.8
pydantic==1.10.2
pydata-sphinx-theme==0.8.1
Pygments==2.13.0
pyinspect==0.1.0
pynrrd==0.4.3
pynwb==2.3.2
pyout==0.7.2
pyparsing==3.0.9
PyPDF2==3.0.1
pyrsistent==0.19.2
pytest==7.2.1
pytest-cov==4.0.0
pytest-xdist==3.2.1
python-dateutil==2.8.2
pythreejs==2.4.1
pytz==2022.6
PyWavelets==1.4.1
pywin32==306
pywin32-ctypes==0.2.0
pywinpty==2.0.10
PyYAML==6.0
pyzmq==24.0.1
qtconsole==5.4.0
QtPy==2.3.0
quantities==0.14.1
requests==2.28.1
requests-toolbelt==0.10.1
retry==0.9.2
rfc3339-validator==0.1.4
rfc3987==1.3.8
rich==12.6.0
ruamel.yaml==0.17.21
ruamel.yaml.clib==0.2.7
s3transfer==0.3.7
scikit-build==0.16.4
scikit-image==0.19.3
scikit-learn==1.1.2
scipy==1.9.3
seaborn==0.12.1
semantic-version==2.10.0
semver==2.13.0
Send2Trash==1.8.0
SimpleITK==2.2.1
simplejson==3.18.0
six==1.16.0
smmap==5.0.0
sniffio==1.3.0
snowballstemmer==2.2.0
soupsieve==2.3.2.post1
Sphinx==4.5.0
sphinx-book-theme==0.3.3
sphinx-comments==0.0.3
sphinx-copybutton==0.5.0
sphinx-external-toc==0.2.4
sphinx-jupyterbook-latex==0.4.7
sphinx-multitoc-numbering==0.1.3
sphinx-thebe==0.1.2
sphinx-togglebutton==0.3.2
sphinx_design==0.1.0
sphinxcontrib-applehelp==1.0.2
sphinxcontrib-bibtex==2.5.0
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
SQLAlchemy==1.4.41
stack-data==0.6.2
statsmodels==0.13.0
strict-rfc3339==0.7
tables==3.7.0
tabulate==0.9.0
tenacity==8.1.0
terminado==0.17.0
threadpoolctl==3.1.0
tifffile==2022.10.10
tinycss2==1.2.1
tomli==2.0.1
toolz==0.12.0
tornado==6.2
tqdm==4.64.1
traitlets==5.6.0
traittypes==0.2.1
treelib==1.6.1
trimesh==3.16.4
typing_extensions==4.4.0
uc-micro-py==1.0.1
uri-template==1.2.0
urllib3==1.26.13
util-colleenjg==0.0.1
vedo==2021.0.5
vtk==9.2.2
wcwidth==0.2.5
webcolors==1.12
webencodings==0.5.1
websocket-client==1.4.2
widgetsnbextension==3.6.1
win32-setctime==1.1.0
wrapt==1.14.1
wslink==1.8.4
xarray==2022.11.0
yarl==1.8.1
zarr==2.13.3
zipp==3.11.0
zstandard==0.19.0

And here's the github runner

accessible-pygments==0.0.4
aiohttp==3.8.4
aiosignal==1.3.1
alabaster==0.7.[13](https://github.com/AllenInstitute/openscope_databook/actions/runs/5294722262/jobs/9584356568#step:8:14)
appdirs==1.4.4
argon2-cffi==21.3.0
argon2-cffi-bindings==21.2.0
argschema==2.0.2
arrow==1.2.3
asciitree==0.3.3
asttokens==2.2.1
async-timeout==4.0.2
attrs==23.1.0
Babel==2.12.1
backcall==0.2.0
beautifulsoup4==4.12.2
bidsschematools==0.7.1
bleach==6.0.0
blessed==1.20.0
bqplot==0.12.39
ccfwidget==0.5.3
certifi==2023.5.7
cffi==1.15.1
charset-normalizer==3.1.0
ci-info==0.3.0
click==8.1.3
click-didyoumean==0.3.0
cloudpickle==2.2.1
colorcet==3.0.1
comm==0.1.3
contourpy==1.1.0
coverage==7.2.7
cryptography==41.0.1
cycler==0.11.0
dandi==0.46.6
dandischema==0.7.1
dask==2023.6.0
-e git+https://github.com/AllenInstitute/openscope_databook@b271327c48689c0c0548df8488222d17342d4dbe#egg=databook_utils
debugpy==1.6.7
decorator==5.1.1
defusedxml==0.7.1
dnspython==2.3.0
docutils==0.18.1
elephant==0.12.0
email-validator==2.0.0.post2
entrypoints==0.4
etelemetry==0.3.0
exceptiongroup==1.1.1
execnet==1.9.0
executing==1.2.0
fasteners==0.18
fastjsonschema==2.17.1
fonttools==4.40.0
fqdn==1.5.1
frozenlist==1.3.3
fscacher==0.3.0
fsspec==2022.11.0
gast==0.4.0
greenlet==2.0.2
h5py==3.7.0
hdmf==3.6.1
humanize==4.6.0
idna==3.4
imageio==2.31.1
imagesize==1.4.1
importlib-metadata==4.13.0
iniconfig==2.0.0
interleave==0.2.1
ipydatagrid==1.1.16
ipydatawidgets==4.3.2
ipykernel==6.23.2
ipympl==0.9.3
ipython==8.[14](https://github.com/AllenInstitute/openscope_databook/actions/runs/5294722262/jobs/9584356568#step:8:15).0
ipython-genutils==0.2.0
ipytree==0.2.2
ipyvolume==0.6.3
ipyvue==1.9.2
ipyvuetify==1.8.10
ipywebrtc==0.6.0
ipywidgets==7.7.5
isodate==0.6.1
isoduration==20.11.0
itk-core==5.3.0
itk-filtering==5.3.0
itk-meshtopolydata==0.10.0
itk-numerics==5.3.0
itkwidgets==0.32.6
jaraco.classes==3.2.3
jedi==0.18.2
jeepney==0.8.0
Jinja2==3.1.2
joblib==1.2.0
jsonpointer==2.4
jsonschema==4.17.3
jupyter==1.0.0
jupyter-book==0.[15](https://github.com/AllenInstitute/openscope_databook/actions/runs/5294722262/jobs/9584356568#step:8:16).1
jupyter-cache==0.6.1
jupyter-console==6.6.3
jupyter_client==8.2.0
jupyter_core==5.3.1
jupyterlab-pygments==0.2.2
jupyterlab-widgets==1.1.4
keyring==23.13.1
keyrings.alt==4.2.0
kiwisolver==1.4.4
latexcodec==2.0.1
lazy_loader==0.2
linkify-it-py==2.0.2
locket==1.0.0
markdown-it-py==2.2.0
MarkupSafe==2.0.1
marshmallow==3.0.0rc6
matplotlib==3.6.2
matplotlib-inline==0.1.6
mdit-py-plugins==0.3.5
mdurl==0.1.2
mistune==2.0.5
more-itertools==9.1.0
mpl-interactions==0.22.0
multidict==6.0.4
myst-nb==0.17.2
myst-parser==0.18.1
natsort==8.3.1
nbclient==0.6.8
nbconvert==7.5.0
nbformat==5.9.0
nbmake==1.4.1
ndx-grayscalevolume==0.0.2
ndx-icephys-meta==0.1.0
ndx-spectrum==0.2.2
neo==0.12.0
nest-asyncio==1.5.6
networkx==3.1
notebook==6.4.12
numcodecs==0.11.0
numpy==1.22.4
nwbinspector==0.4.28
nwbwidgets==0.10.0
opencv-python==4.7.0.72
ophys-nway-matching @ git+https://github.com/AllenInstitute/ophys_nway_matching@545504ab55922717ab623f8ede2c521a60aa1458
packaging==23.1
pandas==1.5.2
pandocfilters==1.5.0
param==1.13.0
parso==0.8.3
partd==1.4.0
pexpect==4.8.0
pickleshare==0.7.5
Pillow==9.3.0
platformdirs==3.5.3
plotly==5.15.0
pluggy==1.0.0
prometheus-client==0.17.0
prompt-toolkit==3.0.38
psutil==5.9.5
ptyprocess==0.7.0
pure-eval==0.2.2
py2vega==0.6.1
pybtex==0.24.0
pybtex-docutils==1.0.2
pycparser==2.21
pycryptodomex==3.18.0
pyct==0.5.0
pydantic==1.10.9
pydata-sphinx-theme==0.13.3
Pygments==2.15.1
pynwb==2.2.0
pyout==0.7.3
pyparsing==3.0.9
PyPDF2==3.0.1
pyrsistent==0.19.3
pytest==7.3.2
pytest-cov==4.1.0
pytest-xdist==3.3.1
python-dateutil==2.8.2
pythreejs==2.4.2
pytz==2023.3
PyWavelets==1.4.1
PyYAML==6.0
pyzmq==25.1.0
qtconsole==5.4.3
QtPy==2.3.1
quantities==0.14.1
requests==2.31.0
rfc3339-validator==0.1.4
rfc3987==1.3.8
ruamel.yaml==0.17.31
ruamel.yaml.clib==0.2.7
scikit-image==0.19.3
scipy==1.9.3
SecretStorage==3.3.3
semantic-version==2.10.0
Send2Trash==1.8.2
six==1.[16](https://github.com/AllenInstitute/openscope_databook/actions/runs/5294722262/jobs/9584356568#step:8:17).0
snowballstemmer==2.2.0
soupsieve==2.4.1
Sphinx==5.0.2
sphinx-book-theme==1.0.1
sphinx-comments==0.0.3
sphinx-copybutton==0.5.2
sphinx-jupyterbook-latex==0.5.2
sphinx-multitoc-numbering==0.1.3
sphinx-thebe==0.2.1
sphinx-togglebutton==0.3.2
sphinx_design==0.3.0
sphinx_external_toc==0.3.1
sphinxcontrib-applehelp==1.0.4
sphinxcontrib-bibtex==2.5.0
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
SQLAlchemy==2.0.16
stack-data==0.6.2
tabulate==0.9.0
tenacity==8.2.2
terminado==0.[17](https://github.com/AllenInstitute/openscope_databook/actions/runs/5294722262/jobs/9584356568#step:8:18).1
tifffile==[20](https://github.com/AllenInstitute/openscope_databook/actions/runs/5294722262/jobs/9584356568#step:8:21)23.4.12
tinycss2==1.2.1
tomli==2.0.1
toolz==0.12.0
tornado==6.3.2
tqdm==4.65.0
traitlets==5.6.0
traittypes==0.2.1
trimesh==3.22.1
typing_extensions==4.6.3
uc-micro-py==1.0.2
uri-template==1.2.0
urllib3==2.0.3
wcwidth==0.2.6
webcolors==1.13
webencodings==0.5.1
widgetsnbextension==3.6.4
xarray==2023.5.0
yarl==1.9.2
zarr==2.15.0
zipp==3.15.0
zstandard==0.[21](https://github.com/AllenInstitute/openscope_databook/actions/runs/5294722262/jobs/9584356568#step:8:22).0
rcpeene commented 1 year ago

I specified itkwidgets==0.32.4 but same error.

rcpeene commented 1 year ago

Problem was missing the right version of zarr on github runner. pip install ccfwidget not requiring the right zarr version?