No module named 'imageio.v3'

[magland]

I installed sleap-io via

pip install sleap-io

Then upon

import sleap_io

I get error

In [1]: import sleap_io
---------------------------------------------------------------------------
ModuleNotFoundError                       Traceback (most recent call last)
Cell In[1], line 1
----> 1 import sleap_io

File ~/miniconda3/envs/dev/lib/python3.9/site-packages/sleap_io/__init__.py:8
      5 __version__ = "0.0.6"
      7 from sleap_io.model.skeleton import Node, Edge, Skeleton, Symmetry
----> 8 from sleap_io.model.video import Video
      9 from sleap_io.model.instance import (
     10     Point,
     11     PredictedPoint,
   (...)
     14     PredictedInstance,
     15 )
     16 from sleap_io.model.labeled_frame import LabeledFrame

File ~/miniconda3/envs/dev/lib/python3.9/site-packages/sleap_io/model/video.py:11
      9 from typing import Tuple, Optional, Optional
     10 import numpy as np
---> 11 from sleap_io.io.video import VideoBackend
     14 @define
     15 class Video:
     16     """`Video` class used by sleap to represent videos and data associated with them.
     17 
     18     This class is used to store information regarding a video and its components.
   (...)
     29     See also: VideoBackend
     30     """

File ~/miniconda3/envs/dev/lib/python3.9/site-packages/sleap_io/io/video.py:12
     10 import attrs
     11 import h5py
---> 12 import imageio.v3 as iio
     13 import numpy as np
     15 try:

ModuleNotFoundError: No module named 'imageio.v3'

The version of imageio installed is 2.15.0

[talmo]

Hi @magland,

Sorry about that -- we do all of our environment management and testing using mamba so we were always pulling in newer versions of imageio.

2.15 is a little old, so I'm surprised that's what you had in the environment. Here's the relevant discussion regarding the v3 API: imageio/imageio#725

I'll pin our deps to a newer version now, but try updating it with:

pip install --upgrade "imageio>=2.26"

Cheers,

Talmo

[magland]

Thanks Talmo, that did the trick.

But I got a warning, because ironically, it's sleap that requires imageio<=2.15.0

https://github.com/talmolab/sleap/blob/1a0404c0ffae7b248eb360562b0bb95a42a287b6/requirements.txt#L22

[talmo]

Hah of course! We're working on updating all the deps but it's been tricky...

I think we had pinned imageio because of imgaug, which is another one we need to address.

Glad this worked, though I imagine sleap will probably have other annoying dependencies at the moment as well.

Closing for now but feel free to reply or open another issue if there's any other problems with imageio!