ngff-zarr 0.2.0

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ngff-zarr

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A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.

Table of Contents

• Installation
• Features
• See also
• License

Installation

pip install 'ngff-zarr[dask-image]'

Features

• Minimal dependencies
• Work with arbitrary Zarr store types
• Lazy, parallel, and web ready -- no local filesystem required
• Process extremely large datasets
• Multiple downscaling methods
• Supports Python>=3.7

See also

• ome-zarr-py
• multiscale-spatial-image

License

ngff-zarr is distributed under the terms of the MIT license.

Development

Contributions are welcome and appreciated.

To run the unit tests:

pip install -e ".[test,dask-image]"
pytest

Updating test data

1. Generate new test data tarball

cd test/data
tar cvf ../data.tar baseline input
gzip -9 ../data.tar

2. Upload the data to web3.storage

3. Upload the test_data_ipfs_cid (from web3.storage web UI) and test_data_sha256 (sh256sum ../data.tar.gz) variables in test/_data.py.