getting exception with default demo

[satra]

running on hub.dandiarchive.org (our download the docker container: dandi/dandihub:latest and start it up):

• install with pip install ccfwidget in a terminal
• open a notebook with the default kernel
• run the code from the README

label_image_weights shape expected to have 1 components, but got () components

[oruebel]

@bendichter can you respond to this issue?

[bendichter]

I'm trying but when I pip install on my M1 pip installs 0.1.0. I haven't pinned down why. This is on a fresh conda env

$ pip install ccfwidget
Collecting ccfwidget
  Using cached ccfwidget-0.5.3-py3-none-any.whl (9.7 kB)
Collecting requests
  Downloading requests-2.28.2-py3-none-any.whl (62 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 62.8/62.8 kB 459.6 kB/s eta 0:00:00
Collecting toolz
  Using cached toolz-0.12.0-py3-none-any.whl (55 kB)
Collecting dask
  Using cached dask-2023.1.1-py3-none-any.whl (1.1 MB)
Collecting zarr
  Downloading zarr-2.13.6-py3-none-any.whl (193 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 193.0/193.0 kB 542.2 kB/s eta 0:00:00
Collecting ipytree
  Using cached ipytree-0.2.2-py2.py3-none-any.whl (1.3 MB)
Collecting fsspec
  Using cached fsspec-2023.1.0-py3-none-any.whl (143 kB)
Collecting itkwidgets>=0.30.1
  Using cached itkwidgets-0.32.5-py2.py3-none-any.whl (3.4 MB)
Collecting xarray
  Using cached xarray-2023.1.0-py3-none-any.whl (973 kB)
Collecting zstandard
  Downloading zstandard-0.19.0-cp310-cp310-macosx_11_0_arm64.whl (348 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 348.9/348.9 kB 539.8 kB/s eta 0:00:00
Collecting colorcet
  Using cached colorcet-3.0.1-py2.py3-none-any.whl (1.7 MB)
Collecting ipydatawidgets>=4.0.1
  Using cached ipydatawidgets-4.3.2-py2.py3-none-any.whl (271 kB)
Collecting traitlets<5.7.0
  Downloading traitlets-5.6.0-py3-none-any.whl (107 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 107.5/107.5 kB 624.4 kB/s eta 0:00:00
Collecting matplotlib
  Using cached matplotlib-3.6.3-cp310-cp310-macosx_11_0_arm64.whl (7.2 MB)
Collecting six
  Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
Collecting notebook<6.5.0
  Using cached notebook-6.4.12-py3-none-any.whl (9.9 MB)
Collecting itk-core>=5.3.0
  Downloading itk_core-5.3.0-cp310-cp310-macosx_11_0_arm64.whl (57.6 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 57.6/57.6 MB 229.2 kB/s eta 0:00:00
Collecting ipywidgets>=7.5.1
  Downloading ipywidgets-8.0.4-py3-none-any.whl (137 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 137.8/137.8 kB 682.2 kB/s eta 0:00:00
Collecting itkwidgets>=0.30.1
  Using cached itkwidgets-0.32.4-py2.py3-none-any.whl (3.4 MB)
  Using cached itkwidgets-0.32.3-py2.py3-none-any.whl (3.4 MB)
  Using cached itkwidgets-0.32.2-py2.py3-none-any.whl (3.4 MB)
  Using cached itkwidgets-0.32.1-py2.py3-none-any.whl (3.4 MB)
Collecting itk-filtering>=5.2.0.post2
  Downloading itk_filtering-5.3.0-cp310-cp310-macosx_11_0_arm64.whl (47.3 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 47.3/47.3 MB 341.0 kB/s eta 0:00:00
Collecting itkwidgets>=0.30.1
  Using cached itkwidgets-0.32.0-py2.py3-none-any.whl (3.4 MB)
  Using cached itkwidgets-0.31.4-py2.py3-none-any.whl (3.4 MB)
  Using cached itkwidgets-0.31.3-py2.py3-none-any.whl (3.3 MB)
  Using cached itkwidgets-0.31.2-py2.py3-none-any.whl (3.4 MB)
  Using cached itkwidgets-0.30.1-py2.py3-none-any.whl (3.4 MB)
INFO: pip is looking at multiple versions of <Python from Requires-Python> to determine which version is compatible with other requirements. This could take a while.
INFO: pip is looking at multiple versions of ccfwidget to determine which version is compatible with other requirements. This could take a while.
Collecting ccfwidget
  Using cached ccfwidget-0.5.2-py3-none-any.whl (9.7 kB)
  Using cached ccfwidget-0.5.1-py3-none-any.whl (9.7 kB)
  Using cached ccfwidget-0.5.0-py3-none-any.whl (9.7 kB)
  Using cached ccfwidget-0.4.0-py3-none-any.whl (6.5 kB)
Collecting itkwidgets>=0.29.0
  Using cached itkwidgets-0.30.0-py2.py3-none-any.whl (3.4 MB)
  Using cached itkwidgets-0.29.0-py2.py3-none-any.whl (3.3 MB)
Collecting ccfwidget
  Using cached ccfwidget-0.3.0-py3-none-any.whl (4.8 kB)
  Using cached ccfwidget-0.2.0-py3-none-any.whl (4.3 kB)
  Using cached ccfwidget-0.1.0-py2.py3-none-any.whl (2.0 kB)
Installing collected packages: ccfwidget
Successfully installed ccfwidget-0.1.0

[rly]

@bendichter the issue seems to stem from the latest version of itkwidgets 0.32.5 requiring itk-meshtopolydata which has no wheels for Mac M1

[rly]

I can reproduce the error and made a minimum working example:

import numpy as np
from traitlets import validate, HasTraits

from ipydatawidgets import NDArray, array_serialization, shape_constraints

class A(HasTraits):
    label_image_weights = NDArray(dtype=np.float32, default_value=None, allow_none=True,
        help="Weights, from 0.0 to 1.0, for every label in the label map.")\
        .valid(shape_constraints(None,))
    
    def __init__(self):
        super().__init__(label_image_weights=None)
        
    @validate('label_image_weights')
    def _validate_label_image_weights(self, proposal):
        """Check the number of weights equals the number of labels."""
        value = proposal['value']
        # if value is None:
        #     return value
        value = np.array(value, dtype=np.float32)
        return value

A()

The problem is that traitlets tries to validate label_image_weights which has shape constraints to be 1D (I think), and the value being set for label_image_weights is np.array(None) which is scalar (has shape ()).

Uncommenting the commented lines of code above, which I added, would fix the error. You could apply that fix to itkwidgets here https://github.com/InsightSoftwareConsortium/itkwidgets/blob/v0.32.5/itkwidgets/widget_viewer.py#L557

But I am not sure why this is coming up all of a sudden. Their code was last changed two years ago. Is it possible that some upstream behavior changed in ipydatawidgets or traitlets or numpy a while ago and we are seeing it only now?

[satra]

@thewtex - do you have any insight?

[rcpeene]

Any updates here? At the moment this prevents me fully utilizing ccf-widgets with dandihub.

[thewtex]

@bendichter the issue seems to stem from the latest version of itkwidgets 0.32.5 requiring itk-meshtopolydata which has no wheels for Mac M1

Python packages have been uploaded for mac arm64 for 3.9, 3.10, 3.11. Please give them a try.