Numcodecs 0.7.0 fails with Zarr package

[yihming]

Minimal, reproducible code sample, a copy-pastable example if possible

from zarr import Blosc

Problem description

I installed numcodecs latest 0.7.0 version, but found that zarr did not work properly with it. Downgrading numcodecs to version 0.6.4 resolved this issue.

Moreover, I had to install a bunch of dependency head files in Ubuntu to make the installation of numcodecs v0.7.0 succeed (see below):

sudo apt install libblosc-dev libzstd-dev liblz4-dev
conda activate pegasus-python37
pip install zarr

Then the code sample above gives the following error message:

>>> from zarr import Blosc
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
ImportError: cannot import name 'Blosc' from 'zarr' (/opt/miniconda3/envs/pegasus-python37/lib/python3.7/site-packages/zarr/__init__.py)

Version and installation information

Please provide the following:

• Value of numcodecs.__version__: 0.7.0
• Version of Python interpreter: 3.7.9
• Operating system (Linux/Windows/Mac): Ubuntu Linux 20.04
• How NumCodecs was installed (e.g., "using pip into virtual environment", or "using conda"): In conda environment, use pip install numcodecs.

My zarr version is 2.4.0.

Also, if you think it might be relevant, please provide the output from pip list or
conda list depending on which was used to install NumCodecs.

[ronpandolfi]

Probably related to my issue. Seems like the 0.7.0 distros are missing some components (like blosc):
#242

[jakirkham]

Duplicate of #242

[jakirkham]

Closing to consolidate conversation. Please follow along in issue ( #242 ). Thanks!

[joshmoore]

@yihming, I just pushed out 0.7.1 which appears to work in a fresh ubuntu:16.04 docker image:

    1  apt-get install libblosc-dev libzstd-dev liblz4-dev # Likely 
    2  apt-get update
    4  apt-get install python3
    9  apt-get install python3-venv
   10  python3 -m venv /tmp/z
   12  /tmp/z/bin/pip install -U pip
   14  /tmp/z/bin/pip install -U setuptools
   15  /tmp/z/bin/pip install zarr
   16  /tmp/z/bin/python -c "from zarr import Blosc"

[yihming]

Thank you so much for your quick response. I'll try it later and let you know.

[yihming]

Version 0.7.1 works properly with zarr now. Thank you again for your work!