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fix: numpy 1.24 compat for Array.__array__ #2123

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merged 1 commit into from
Aug 26, 2024

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@jhamman jhamman commented Aug 26, 2024

This PR slightly modifies #2106 to allow for any args/kwargs to be passed to __array__. Without this, earlier versions of NumPy error with the following traceback:

    def __array__(self, dtype=None, copy=None):
>       return np.array(self[...], dtype=dtype, copy=copy)
E       ValueError: NoneType copy mode not allowed.

@dstansby - mind giving this a look

TODO:

  • Add unit tests and/or doctests in docstrings
  • Add docstrings and API docs for any new/modified user-facing classes and functions
  • New/modified features documented in docs/tutorial.rst
  • Changes documented in docs/release.rst
  • GitHub Actions have all passed
  • Test coverage is 100% (Codecov passes)

@jhamman jhamman requested a review from dstansby August 26, 2024 18:03
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codecov bot commented Aug 26, 2024

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 99.98%. Comparing base (025e103) to head (e563829).
Report is 1 commits behind head on main.

Additional details and impacted files
@@           Coverage Diff           @@
##             main    #2123   +/-   ##
=======================================
  Coverage   99.98%   99.98%           
=======================================
  Files          38       38           
  Lines       14714    14714           
=======================================
  Hits        14712    14712           
  Misses          2        2           
Files Coverage Δ
zarr/core.py 100.00% <100.00%> (ø)

@dstansby
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Thanks and sorry for breaking this! It would be good to update one of the CI builds to run with our oldest supported version of numpy so stuff like this is caught in the future. Want to do that here, or I can do it in a follow-up PR?

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jhamman commented Aug 26, 2024

Want to do that here, or I can do it in a follow-up PR?

Let's do it in a separate PR.

@jhamman jhamman merged commit d1b92b5 into zarr-developers:main Aug 26, 2024
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@jhamman jhamman deleted the fix/np2.1-compat branch August 26, 2024 19:56
jhamman added a commit that referenced this pull request Oct 11, 2024
* Bump pypa/gh-action-pypi-publish from 1.8.10 to 1.8.11 (#1586)

Bumps [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish) from 1.8.10 to 1.8.11.
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* Bump conda-incubator/setup-miniconda from 2.3.0 to 3.0.1 (#1587)

Bumps [conda-incubator/setup-miniconda](https://github.com/conda-incubator/setup-miniconda) from 2.3.0 to 3.0.1.
- [Release notes](https://github.com/conda-incubator/setup-miniconda/releases)
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* * Cache result of FSStore._fsspec_installed (#1581)

Prevent runtime-overhead in doing this check multiple times

* Bump version of black in pre-commit (#1559)

* Use list comprehension where applicable (#1555)

Even if this is only a test, list comprehensions are faster than
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Also use tuple instead of list when possible.

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* Bump numcodecs from 0.11.0 to 0.12.1 (#1580)

Bumps [numcodecs](https://github.com/zarr-developers/numcodecs) from 0.11.0 to 0.12.1.
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* Use format specification mini-language to format string (#1558)

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* Single startswith() call instead of multiple ones (#1556)

It's faster and probably more readable.

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* Bump pymongo from 4.5.0 to 4.6.1 (#1585)

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* Move codespell options around (#1196)

Starting with codespell 2.2.2, options can be specified in
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* Bump fsspec from 2023.10.0 to 2023.12.1 (#1600)

* Bump fsspec from 2023.10.0 to 2023.12.1

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* Fix s3fs

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* Add type hints to zarr.create (#1536)

* Add type hints to zarr.create

* Use protocol for MetaArray

* Use protocol for Synchronizer

* Fix Path typing

* Add release note

* Fix dim separator typing

* Ignore ... in coverage reporting

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* Remove unused mypy ignore comments (#1602)

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* Bump actions/setup-python from 4.7.1 to 5.0.0 (#1605)

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* Bump github/codeql-action from 2 to 3 (#1609)

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* chore: update pre-commit hooks (#1448)

* chore: update pre-commit hooks

updates:
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- [github.com/astral-sh/ruff-pre-commit: v0.0.224 → v0.1.8](https://github.com/astral-sh/ruff-pre-commit/compare/v0.0.224...v0.1.8)
- [github.com/psf/black: 23.10.1 → 23.12.0](https://github.com/psf/black/compare/23.10.1...23.12.0)
- [github.com/codespell-project/codespell: v2.2.5 → v2.2.6](https://github.com/codespell-project/codespell/compare/v2.2.5...v2.2.6)
- [github.com/pre-commit/pre-commit-hooks: v4.4.0 → v4.5.0](https://github.com/pre-commit/pre-commit-hooks/compare/v4.4.0...v4.5.0)
- [github.com/pre-commit/mirrors-mypy: v1.3.0 → v1.7.1](https://github.com/pre-commit/mirrors-mypy/compare/v1.3.0...v1.7.1)

* Attempt to fix ruff

* Use isinstance

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* chore: update pre-commit hooks (#1618)

updates:
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- [github.com/psf/black: 23.12.0 → 23.12.1](https://github.com/psf/black/compare/23.12.0...23.12.1)
- [github.com/pre-commit/mirrors-mypy: v1.7.1 → v1.8.0](https://github.com/pre-commit/mirrors-mypy/compare/v1.7.1...v1.8.0)

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* Bump fsspec from 2023.12.1 to 2023.12.2 (#1606)

* Bump fsspec from 2023.12.1 to 2023.12.2

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* Bump pytest-doctestplus from 1.0.0 to 1.1.0 (#1619)

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* Bump pytest from 7.4.3 to 7.4.4 (#1622)

* chore: update pre-commit hooks (#1626)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.1.9 → v0.1.11](https://github.com/astral-sh/ruff-pre-commit/compare/v0.1.9...v0.1.11)

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* Create TEAM.md (#1628)

* Drop python 3.8 and numpy 1.20 (#1557)

* Drop 3.8 and add 3.12

* Try removing line_profiler

* Also bump the minimal numpy to 1.21

* Drop 3.12 again

* Revert "Try removing line_profiler"

This reverts commit 837854bec99a9d25aece2ead9666f01690d228cc.

* Update release.rst

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* Add Norman Rzepka to core-dev team (#1630)

* chore: update pre-commit hooks (#1633)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.1.11 → v0.1.13](https://github.com/astral-sh/ruff-pre-commit/compare/v0.1.11...v0.1.13)

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* Bump actions/download-artifact from 3 to 4 (#1611)

* Bump actions/download-artifact from 3 to 4

Bumps [actions/download-artifact](https://github.com/actions/download-artifact) from 3 to 4.
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* Also bump upload-artifact

see https://github.com/actions/download-artifact?tab=readme-ov-file#breaking-changes

> Downloading artifacts that were created from action/upload-artifact@v3 and below are not supported.

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* Update tutorial.rst to include section about accessing Zip Files on S3 (#1615)

* Update tutorial.rst to include section about accessing Zip Files on S3

Per discussion here, add information about about accessing zip files on s3:
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* Update release.rst

* Implement d-v-b's suggestions

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* doc(v3): add v3 roadmap and design document (#1583)

* doc(v3): add v3 roadmap and design document

* Update v3-roadmap-and-design.md

* updates after latest round of reviews

* Update v3-roadmap-and-design.md

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* Update v3-roadmap-and-design.md

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* chore: update pre-commit hooks (#1636)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.1.13 → v0.1.14](https://github.com/astral-sh/ruff-pre-commit/compare/v0.1.13...v0.1.14)

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* Fix zarr sync (#1663)

This patch removes fasteners and disables zarr.sync which uses process and thread

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* Update release.rst (#1621)

* Update release.rst

* Update release.rst

* Change 2.16.2 → 2.17.0

* Update moto for test_s3

* Skip bsddb3 tests to prevent warning failure

* Fix more user warning tests

* Fix even more user warning tests

* Skip coverage for importorskips

* Move to have_X skip method for deps

* Update release.rst (PR#1663)

* Fix test_core.py 'compile' issues

* Add black formatting

* Drop Windows/3.9 build due to unrelated failures

* fix typo

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* Bump numpy from 1.24.3 to 1.26.1 (#1543)

Bumps [numpy](https://github.com/numpy/numpy) from 1.24.3 to 1.26.1.
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
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* chore: update pre-commit hooks (#1642)

* chore: update pre-commit hooks

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.1.14 → v0.2.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.1.14...v0.2.1)
- [github.com/psf/black: 23.12.1 → 24.2.0](https://github.com/psf/black/compare/23.12.1...24.2.0)

* run black incl. comments for '...'

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* Bump ipywidgets from 8.1.0 to 8.1.1 (#1538)

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* Proper argument for numpy.reshape (#1425)

`numpy.reshape` not only accepts a tuple of ints, but also a simple int.

Besides `(10)` is not a tuple and is identical to `10`, unlike `(10,)`.

* Bump ipywidgets from 8.1.1 to 8.1.2 (#1666)

Bumps [ipywidgets](https://github.com/jupyter-widgets/ipywidgets) from 8.1.1 to 8.1.2.
- [Release notes](https://github.com/jupyter-widgets/ipywidgets/releases)
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* docs: ZIP-related tweaks (#1641)

* docs: use 'ZIP archive' instead of 'zip file'; clarify utility of caching in s3 + ZIP example; style

* docs: update release notes, correct spelling of greg lee's name in past release notes, and fix markup in past release notes

* docs: use 'ZIP archive' instead of 'zip file'; clarify utility of caching in s3 + ZIP example; style

* docs: update release notes, correct spelling of greg lee's name in past release notes, and fix markup in past release notes

* Bump numpy from 1.26.1 to 1.26.4 (#1669)

Bumps [numpy](https://github.com/numpy/numpy) from 1.26.1 to 1.26.4.
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](https://github.com/numpy/numpy/compare/v1.26.1...v1.26.4)

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* Change occurrences of % and format() to f-strings (#1423)

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* chore: update pre-commit hooks (#1672)

updates:
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* Bump pymongo from 4.6.1 to 4.6.2 (#1674)

Bumps [pymongo](https://github.com/mongodb/mongo-python-driver) from 4.6.1 to 4.6.2.
- [Release notes](https://github.com/mongodb/mongo-python-driver/releases)
- [Changelog](https://github.com/mongodb/mongo-python-driver/blob/4.6.2/doc/changelog.rst)
- [Commits](https://github.com/mongodb/mongo-python-driver/compare/4.6.1...4.6.2)

---
updated-dependencies:
- dependency-name: pymongo
  dependency-type: direct:development
  update-type: version-update:semver-patch
...

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* Bump conda-incubator/setup-miniconda from 3.0.1 to 3.0.2 (#1677)

Bumps [conda-incubator/setup-miniconda](https://github.com/conda-incubator/setup-miniconda) from 3.0.1 to 3.0.2.
- [Release notes](https://github.com/conda-incubator/setup-miniconda/releases)
- [Changelog](https://github.com/conda-incubator/setup-miniconda/blob/main/CHANGELOG.md)
- [Commits](https://github.com/conda-incubator/setup-miniconda/compare/v3.0.1...v3.0.2)

---
updated-dependencies:
- dependency-name: conda-incubator/setup-miniconda
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

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* Update config.yml with Zulip

* Type dimension separator (#1620)

Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>

* Replace Gitter with new Zulip Chat link (#1685)

* Replace Gitter with Zulip

* Replace Gitter with Zulip in remaining places

* Bump redis from 5.0.1 to 5.0.2 (#1688)

Bumps [redis](https://github.com/redis/redis-py) from 5.0.1 to 5.0.2.
- [Release notes](https://github.com/redis/redis-py/releases)
- [Changelog](https://github.com/redis/redis-py/blob/master/CHANGES)
- [Commits](https://github.com/redis/redis-py/compare/v5.0.1...v5.0.2)

---
updated-dependencies:
- dependency-name: redis
  dependency-type: direct:development
  update-type: version-update:semver-patch
...

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* Bump pypa/gh-action-pypi-publish from 1.8.11 to 1.8.12 (#1691)

Bumps [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish) from 1.8.11 to 1.8.12.
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.8.11...v1.8.12)

---
updated-dependencies:
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

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* Bump pytest-doctestplus from 1.1.0 to 1.2.0 (#1693)

Bumps [pytest-doctestplus](https://github.com/scientific-python/pytest-doctestplus) from 1.1.0 to 1.2.0.
- [Release notes](https://github.com/scientific-python/pytest-doctestplus/releases)
- [Changelog](https://github.com/scientific-python/pytest-doctestplus/blob/main/CHANGES.rst)
- [Commits](https://github.com/scientific-python/pytest-doctestplus/compare/v1.1.0...v1.2.0)

---
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- dependency-name: pytest-doctestplus
  dependency-type: direct:development
  update-type: version-update:semver-minor
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* Fix RTD build (#1694)

* Update release.rst for v2.17.1 (#1673)

* Update release.rst for v2.17.1

* Change the copyright year from 2023 → 2024.

* Update release.rst for v2.17.1

* Bump pytest-timeout from 2.2.0 to 2.3.1 (#1697)

Bumps [pytest-timeout](https://github.com/pytest-dev/pytest-timeout) from 2.2.0 to 2.3.1.
- [Commits](https://github.com/pytest-dev/pytest-timeout/compare/2.2.0...2.3.1)

---
updated-dependencies:
- dependency-name: pytest-timeout
  dependency-type: direct:development
  update-type: version-update:semver-minor
...

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* Bump conda-incubator/setup-miniconda from 3.0.2 to 3.0.3 (#1690)

Bumps [conda-incubator/setup-miniconda](https://github.com/conda-incubator/setup-miniconda) from 3.0.2 to 3.0.3.
- [Release notes](https://github.com/conda-incubator/setup-miniconda/releases)
- [Changelog](https://github.com/conda-incubator/setup-miniconda/blob/main/CHANGELOG.md)
- [Commits](https://github.com/conda-incubator/setup-miniconda/compare/v3.0.2...v3.0.3)

---
updated-dependencies:
- dependency-name: conda-incubator/setup-miniconda
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

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* docs(tutorial.rst): fix link to GCSMap (#1689)

* Update installation.rst stating version support policy (#1665)

* Update installation.rst stating version support policy

* Update docs/installation.rst

Co-authored-by: Joe Hamman <jhamman1@gmail.com>

* Update docs/installation.rst

---------

Co-authored-by: Joe Hamman <jhamman1@gmail.com>

* Bump pypa/gh-action-pypi-publish from 1.8.12 to 1.8.14 (#1700)

Bumps [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish) from 1.8.12 to 1.8.14.
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.8.12...v1.8.14)

---
updated-dependencies:
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

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* Bump pytest-doctestplus from 1.2.0 to 1.2.1 (#1699)

Bumps [pytest-doctestplus](https://github.com/scientific-python/pytest-doctestplus) from 1.2.0 to 1.2.1.
- [Release notes](https://github.com/scientific-python/pytest-doctestplus/releases)
- [Changelog](https://github.com/scientific-python/pytest-doctestplus/blob/main/CHANGES.rst)
- [Commits](https://github.com/scientific-python/pytest-doctestplus/compare/v1.2.0...v1.2.1)

---
updated-dependencies:
- dependency-name: pytest-doctestplus
  dependency-type: direct:development
  update-type: version-update:semver-patch
...

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Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>

* Bump redis from 5.0.2 to 5.0.3 (#1698)

Bumps [redis](https://github.com/redis/redis-py) from 5.0.2 to 5.0.3.
- [Release notes](https://github.com/redis/redis-py/releases)
- [Changelog](https://github.com/redis/redis-py/blob/master/CHANGES)
- [Commits](https://github.com/redis/redis-py/compare/v5.0.2...v5.0.3)

---
updated-dependencies:
- dependency-name: redis
  dependency-type: direct:development
  update-type: version-update:semver-patch
...

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* Add Python 3.12 to CI (#1719)

* Update python-package.yml

* bump numpy versions

* bump min python version

* Update release.rst

* Bump pytest-cov from 4.1.0 to 5.0.0 (#1722)

Bumps [pytest-cov](https://github.com/pytest-dev/pytest-cov) from 4.1.0 to 5.0.0.
- [Changelog](https://github.com/pytest-dev/pytest-cov/blob/master/CHANGELOG.rst)
- [Commits](https://github.com/pytest-dev/pytest-cov/compare/v4.1.0...v5.0.0)

---
updated-dependencies:
- dependency-name: pytest-cov
  dependency-type: direct:development
  update-type: version-update:semver-major
...

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* chore: update pre-commit hooks (#1708)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.2.2 → v0.3.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.2.2...v0.3.3)
- [github.com/psf/black: 24.2.0 → 24.3.0](https://github.com/psf/black/compare/24.2.0...24.3.0)
- [github.com/pre-commit/mirrors-mypy: v1.8.0 → v1.9.0](https://github.com/pre-commit/mirrors-mypy/compare/v1.8.0...v1.9.0)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>

* chore: update pre-commit hooks (#1723)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.3.3 → v0.3.4](https://github.com/astral-sh/ruff-pre-commit/compare/v0.3.3...v0.3.4)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* Fix release notes (following #1719) (#1725)

* Override ipython repr methods. (#1724)

Closes #1716

This avoids expensive lookups against object stores.

* Bump pymongo from 4.6.2 to 4.6.3 (#1729)

* Remove v1 and v2 specification (#1582)

* Remove v1 and v2 specification

* fix warning

---------

Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>

* chore: update pre-commit hooks (#1738)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.3.4 → v0.3.5](https://github.com/astral-sh/ruff-pre-commit/compare/v0.3.4...v0.3.5)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* Optimize Array.info and Group.info (#1733)

* Optimize Array.info.

Avoid repeated computes of the same value (getsize)

* Don't have InfoReporter query items twice.

Apparently IPython will run both __repr__ and _repr_html_
so we were calling `getsize` twice.

* Group too

* Apply suggestions from code review

Co-authored-by: Joe Hamman <jhamman1@gmail.com>

---------

Co-authored-by: Joe Hamman <jhamman1@gmail.com>

* Bump actions/setup-python from 5.0.0 to 5.1.0 (#1736)

Bumps [actions/setup-python](https://github.com/actions/setup-python) from 5.0.0 to 5.1.0.
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](https://github.com/actions/setup-python/compare/v5.0.0...v5.1.0)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

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* Couple fixes (#1737)

* Use `is` when comparing `type` of two objects

* Unnecessary `None` provided as default

* Fix tests with Pytest 8 (#1714)

* Bump pytest version

* Use editable install when testing

---------

Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>

* Avoid redundant __contains__ (#1739)

Let's try grabbing the array.json and group.json files,
and check for `*NotFoundError`, instead of using contains first.

Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>

* Array & Group: Use already loaded attributes to populate cache. (#1734)

* Array: Use already loaded attributes to populate cache.

* Group: Use already loaded attributes to populate cache.

* Fix

* Add release note

* Optimize attribute setting (#1741)

* Optimize attribute setting

* Add release note

---------

Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>

* Make sure fs exceptions are raised if not MissingFs exceptions (clone) (#1604)

* Make sure fs exceptions are raised if not Missing

* lint

* add missing argument in tests, lint

* clear memory filesystem during test

* improve commenting

* add memory_store fixture, getitems performance

* Update release.rst

* improve FSStore.test_exception coverage

---------

Co-authored-by: Martin Durant <martin.durant@alumni.utoronto.ca>
Co-authored-by: Joe Hamman <joe@earthmover.io>
Co-authored-by: Josh Moore <josh@openmicroscopy.org>
Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>

* chore(release): update changelog for 2.17.2 (#1775)

* chore(docs): reset release notes as unreleased (#1776)

* Bump codecov/codecov-action from 3 to 4 (#1647)

* Bump codecov/codecov-action from 3 to 4

Bumps [codecov/codecov-action](https://github.com/codecov/codecov-action) from 3 to 4.
- [Release notes](https://github.com/codecov/codecov-action/releases)
- [Changelog](https://github.com/codecov/codecov-action/blob/main/CHANGELOG.md)
- [Commits](https://github.com/codecov/codecov-action/compare/v3...v4)

---
updated-dependencies:
- dependency-name: codecov/codecov-action
  dependency-type: direct:production
  update-type: version-update:semver-major
...

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* Set codecov env

---------

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Josh Moore <josh@openmicroscopy.org>

* Update release.rst for v2.17.2 (#1778)

* Update release.rst for v2.17.2

* Minor edits

---------

Co-authored-by: Joe Hamman <joe@earthmover.io>

* Deprecate the experimental v3 implementation (#1802)

* deprecate(exp-v3): Add a future warning about the pending removal of the experimental v3 implementation

* ignore warning

* add test

* chore: update pre-commit hooks (#1779)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.3.5 → v0.3.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.3.5...v0.3.7)
- [github.com/psf/black: 24.3.0 → 24.4.0](https://github.com/psf/black/compare/24.3.0...24.4.0)
- [github.com/pre-commit/pre-commit-hooks: v4.5.0 → v4.6.0](https://github.com/pre-commit/pre-commit-hooks/compare/v4.5.0...v4.6.0)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* Fix `is_total_slice` for size-1 dimensions (#1800)

Closes #1730

Co-authored-by: Ryan Abernathey <ryan.abernathey@gmail.com>
Co-authored-by: Joe Hamman <joe@earthmover.io>

* add note to the top of the release page noting the plan for 2.18.* and 3.0 (#1816)

* Bump conda-incubator/setup-miniconda from 3.0.3 to 3.0.4 (#1824)

Bumps [conda-incubator/setup-miniconda](https://github.com/conda-incubator/setup-miniconda) from 3.0.3 to 3.0.4.
- [Release notes](https://github.com/conda-incubator/setup-miniconda/releases)
- [Changelog](https://github.com/conda-incubator/setup-miniconda/blob/main/CHANGELOG.md)
- [Commits](https://github.com/conda-incubator/setup-miniconda/compare/v3.0.3...v3.0.4)

---
updated-dependencies:
- dependency-name: conda-incubator/setup-miniconda
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

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* dep(docs): deprecate experimental v3 support in docs (#1807)

* dep(docs): deprecate experimental v3 support in docs

* Apply suggestions from code review

Co-authored-by: Josh Moore <josh@openmicroscopy.org>
Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>

---------

Co-authored-by: Josh Moore <josh@openmicroscopy.org>
Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>

* Bump h5py from 3.10.0 to 3.11.0 (#1786)

Bumps [h5py](https://github.com/h5py/h5py) from 3.10.0 to 3.11.0.
- [Release notes](https://github.com/h5py/h5py/releases)
- [Changelog](https://github.com/h5py/h5py/blob/master/docs/release_guide.rst)
- [Commits](https://github.com/h5py/h5py/compare/3.10.0...3.11.0)

---
updated-dependencies:
- dependency-name: h5py
  dependency-type: direct:development
  update-type: version-update:semver-minor
...

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Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Joe Hamman <joe@earthmover.io>

* Bump redis from 5.0.3 to 5.0.4 (#1810)

Bumps [redis](https://github.com/redis/redis-py) from 5.0.3 to 5.0.4.
- [Release notes](https://github.com/redis/redis-py/releases)
- [Changelog](https://github.com/redis/redis-py/blob/master/CHANGES)
- [Commits](https://github.com/redis/redis-py/compare/v5.0.3...v5.0.4)

---
updated-dependencies:
- dependency-name: redis
  dependency-type: direct:development
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* deprecate(stores): add deprecation warnings to stores that we plan to remove in v3 (#1801)

* deprecate(stores): add deprecation warnings to DBMStore, LMDBStore, SQLiteStore, MongoDBStore, RedisStore, and ABSStore

* filter warnings in pytest config

* more deprecation warnings in docstrings

* add release note

* use np.inf instead of PINF/NINF (#1842)

* use np.inf instead of PINF/NINF

* update release notes

* chore: update pre-commit hooks (#1825)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.4.1 → v0.4.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.4.1...v0.4.3)
- [github.com/psf/black: 24.4.0 → 24.4.2](https://github.com/psf/black/compare/24.4.0...24.4.2)
- [github.com/pre-commit/mirrors-mypy: v1.9.0 → v1.10.0](https://github.com/pre-commit/mirrors-mypy/compare/v1.9.0...v1.10.0)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* Enable ruff/bugbear rules (B) and fix issues (#1702)

* Enable ruff/bugbear rules (B)

As suggested by Repo-Review.

* Fix ruff/bugbear issue (B007)

B007 Loop control variable `key` not used within loop body

https://docs.astral.sh/ruff/rules/unused-loop-control-variable/

* Fix ruff/bugbear issue (B015)

B015 Pointless comparison. Did you mean to assign a value?
     Otherwise, prepend `assert` or remove it.

https://docs.astral.sh/ruff/rules/useless-comparison/

* Fix ruff/bugbear issues (B028)

B028 No explicit `stacklevel` keyword argument found

https://docs.astral.sh/ruff/rules/no-explicit-stacklevel/

* Fix ruff/bugbear issues (B904)

B904 Within an `except` clause, raise exceptions with `raise ... from err` or
     `raise ... from None` to distinguish them from errors in exception handling

https://docs.astral.sh/ruff/rules/raise-without-from-inside-except/

* Document changes in docs/release.rst

* Disable ruff/bugbear rule (B017)

B017 `pytest.raises(Exception)` should be considered evil

https://docs.astral.sh/ruff/rules/assert-raises-exception/

---------

Co-authored-by: Joe Hamman <joe@earthmover.io>

* Release notes for 2.18.0 (#1843)

* doc: cleanup release notes for 2.18.0

* Update release.rst (#1850)

* Group dependabot updates (#1854)

* chore: update pre-commit hooks (#1876)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.4.3 → v0.4.4](https://github.com/astral-sh/ruff-pre-commit/compare/v0.4.3...v0.4.4)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* Fix a regression with scalar indexing due to #1800 (#1875)

* release notes for 2.18.1 (#1885)

* reset release notes (#1886)

* Add zstd to old V3 supported codecs (#1914)

* add zstd to old V3 supported codecs

* get to full test coverage and add release note

* fix pre-commit

* doc: update release notes for 2.18.2 (#1915)

* Drop support for Python 3.9

* Revert "Drop support for Python 3.9"

This reverts commit a054afbbdaf7c8560d0ce5df77af969bc863e335.

* Update TEAM.md (#2071)

* [v2] Fix doctests with numpy 2.0 (#2073)

* Fix version number in built docs (#2044)

* Fix orthogonal indexing with scalar. (#1947)

Co-authored-by: David Stansby <dstansby@gmail.com>

* Bump the requirements group across 1 directory with 7 updates (#2092)

Bumps the requirements group with 7 updates in the / directory:

| Package | From | To |
| --- | --- | --- |
| [numpy](https://github.com/numpy/numpy) | `1.26.4` | `2.0.1` |
| [ipywidgets](https://github.com/jupyter-widgets/ipywidgets) | `8.1.2` | `8.1.3` |
| [setuptools-scm](https://github.com/pypa/setuptools_scm) | `8.0.4` | `8.1.0` |
| [pytest](https://github.com/pytest-dev/pytest) | `8.1.1` | `8.3.2` |
| [lmdb](https://github.com/jnwatson/py-lmdb) | `1.4.1` | `1.5.1` |
| [redis](https://github.com/redis/redis-py) | `5.0.4` | `5.0.8` |
| [pymongo](https://github.com/mongodb/mongo-python-driver) | `4.6.3` | `4.8.0` |



Updates `numpy` from 1.26.4 to 2.0.1
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](https://github.com/numpy/numpy/compare/v1.26.4...v2.0.1)

Updates `ipywidgets` from 8.1.2 to 8.1.3
- [Release notes](https://github.com/jupyter-widgets/ipywidgets/releases)
- [Commits](https://github.com/jupyter-widgets/ipywidgets/compare/8.1.2...8.1.3)

Updates `setuptools-scm` from 8.0.4 to 8.1.0
- [Release notes](https://github.com/pypa/setuptools_scm/releases)
- [Changelog](https://github.com/pypa/setuptools_scm/blob/main/CHANGELOG.md)
- [Commits](https://github.com/pypa/setuptools_scm/compare/v8.0.4...v8.1.0)

Updates `pytest` from 8.1.1 to 8.3.2
- [Release notes](https://github.com/pytest-dev/pytest/releases)
- [Changelog](https://github.com/pytest-dev/pytest/blob/main/CHANGELOG.rst)
- [Commits](https://github.com/pytest-dev/pytest/compare/8.1.1...8.3.2)

Updates `lmdb` from 1.4.1 to 1.5.1
- [Changelog](https://github.com/jnwatson/py-lmdb/blob/master/ChangeLog)
- [Commits](https://github.com/jnwatson/py-lmdb/compare/py-lmdb_1.4.1...py-lmdb_1.5.1)

Updates `redis` from 5.0.4 to 5.0.8
- [Release notes](https://github.com/redis/redis-py/releases)
- [Changelog](https://github.com/redis/redis-py/blob/master/CHANGES)
- [Commits](https://github.com/redis/redis-py/compare/v5.0.4...v5.0.8)

Updates `pymongo` from 4.6.3 to 4.8.0
- [Release notes](https://github.com/mongodb/mongo-python-driver/releases)
- [Changelog](https://github.com/mongodb/mongo-python-driver/blob/master/doc/changelog.rst)
- [Commits](https://github.com/mongodb/mongo-python-driver/compare/4.6.3...4.8.0)

---
updated-dependencies:
- dependency-name: numpy
  dependency-type: direct:development
  update-type: version-update:semver-major
  dependency-group: requirements
- dependency-name: ipywidgets
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
- dependency-name: setuptools-scm
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
- dependency-name: pytest
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
- dependency-name: lmdb
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
- dependency-name: redis
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
- dependency-name: pymongo
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Bump the actions group with 2 updates (#2087)

Bumps the actions group with 2 updates: [actions/setup-python](https://github.com/actions/setup-python) and [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish).


Updates `actions/setup-python` from 5.1.0 to 5.1.1
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](https://github.com/actions/setup-python/compare/v5.1.0...v5.1.1)

Updates `pypa/gh-action-pypi-publish` from 1.8.14 to 1.9.0
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.8.14...v1.9.0)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: actions
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: actions
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* [v2] Drop support for Python 3.9 (#2074)

* Drop support for Python 3.9

* Ignore B905 ruff rule

* Fix release notes

* Fix Array.__array__ for numpy 2.1 (#2106)

* Fix Array.__array__ for numpy 2.1

* Add changelog

* Depend on np.array for array coercions

* Bump test version of numcodecs (#2114)

* Bump test version of numcodecs

* Fix test for numcodecs 0.13

* fix: numpy 1.24 compat for Array.__array__ (#2123)

* Deprecate N5Store (#2103)

* deprecate(n5): add deprecation warning to N5Store

* also deprecate N5FSStore

* docs

* fix doc

* Run tests on numpy 1.23 (#2124)

* Bump the requirements group across 1 directory with 3 updates (#2129)

Bumps the requirements group with 3 updates in the / directory: [numpy](https://github.com/numpy/numpy), [ipywidgets](https://github.com/jupyter-widgets/ipywidgets) and [azure-storage-blob](https://github.com/Azure/azure-sdk-for-python).


Updates `numpy` from 2.0.1 to 2.1.0
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](https://github.com/numpy/numpy/compare/v2.0.1...v2.1.0)

Updates `ipywidgets` from 8.1.3 to 8.1.5
- [Release notes](https://github.com/jupyter-widgets/ipywidgets/releases)
- [Commits](https://github.com/jupyter-widgets/ipywidgets/compare/8.1.3...8.1.5)

Updates `azure-storage-blob` from 12.16.0 to 12.21.0
- [Release notes](https://github.com/Azure/azure-sdk-for-python/releases)
- [Changelog](https://github.com/Azure/azure-sdk-for-python/blob/main/doc/esrp_release.md)
- [Commits](https://github.com/Azure/azure-sdk-for-python/compare/azure-storage-blob_12.16.0...azure-storage-blob_12.21.0)

---
updated-dependencies:
- dependency-name: numpy
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
- dependency-name: ipywidgets
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
- dependency-name: azure-storage-blob
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* chore: bump minimum numpy version to 1.24 (#2127)

* chore: bump minimum version to 1.24

* Update .github/workflows/python-package.yml

* Remove un-needed package installs in CI (#2095)

* Bump the actions group with 2 updates (#2146)

Bumps the actions group with 2 updates: [actions/setup-python](https://github.com/actions/setup-python) and [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish).


Updates `actions/setup-python` from 5.1.1 to 5.2.0
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](https://github.com/actions/setup-python/compare/v5.1.1...v5.2.0)

Updates `pypa/gh-action-pypi-publish` from 1.9.0 to 1.10.0
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.9.0...v1.10.0)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: actions
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: actions
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Bump numpy from 2.1.0 to 2.1.1 in the requirements group (#2151)

Bumps the requirements group with 1 update: [numpy](https://github.com/numpy/numpy).


Updates `numpy` from 2.1.0 to 2.1.1
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](https://github.com/numpy/numpy/compare/v2.1.0...v2.1.1)

---
updated-dependencies:
- dependency-name: numpy
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* chore(docs): update release notes ahead of 2.18.4 (#2152)

* Bump pypa/gh-action-pypi-publish from 1.10.0 to 1.10.1 in the actions group (#2161)

Bumps the actions group with 1 update: [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish).


Updates `pypa/gh-action-pypi-publish` from 1.10.0 to 1.10.1
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.10.0...v1.10.1)

---
updated-dependencies:
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: actions
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* [docs] remove primary sidebar from tutorial (#2142)

* remove primary sidebar from tutorial

* lint

* Bump pytest from 8.3.2 to 8.3.3 in the requirements group (#2172)

Bumps the requirements group with 1 update: [pytest](https://github.com/pytest-dev/pytest).


Updates `pytest` from 8.3.2 to 8.3.3
- [Release notes](https://github.com/pytest-dev/pytest/releases)
- [Changelog](https://github.com/pytest-dev/pytest/blob/main/CHANGELOG.rst)
- [Commits](https://github.com/pytest-dev/pytest/compare/8.3.2...8.3.3)

---
updated-dependencies:
- dependency-name: pytest
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Bump pypa/gh-action-pypi-publish in the actions group (#2220)

Bumps the actions group with 1 update: [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish).


Updates `pypa/gh-action-pypi-publish` from 1.10.1 to 1.10.2
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.10.1...v1.10.2)

---
updated-dependencies:
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: actions
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Update TEAM.md (#2227)

* Bump the requirements group across 1 directory with 3 updates (#2284)

Bumps the requirements group with 3 updates in the / directory: [redis](https://github.com/redis/redis-py), [pymongo](https://github.com/mongodb/mongo-python-driver) and [h5py](https://github.com/h5py/h5py).


Updates `redis` from 5.0.8 to 5.1.0
- [Release notes](https://github.com/redis/redis-py/releases)
- [Changelog](https://github.com/redis/redis-py/blob/master/CHANGES)
- [Commits](https://github.com/redis/redis-py/compare/v5.0.8...v5.1.0)

Updates `pymongo` from 4.8.0 to 4.10.0
- [Release notes](https://github.com/mongodb/mongo-python-driver/releases)
- [Changelog](https://github.com/mongodb/mongo-python-driver/blob/master/doc/changelog.rst)
- [Commits](https://github.com/mongodb/mongo-python-driver/compare/4.8.0...4.10.0)

Updates `h5py` from 3.11.0 to 3.12.1
- [Release notes](https://github.com/h5py/h5py/releases)
- [Changelog](https://github.com/h5py/h5py/blob/master/docs/release_guide.rst)
- [Commits](https://github.com/h5py/h5py/compare/3.11.0...3.12.1)

---
updated-dependencies:
- dependency-name: redis
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
- dependency-name: pymongo
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
- dependency-name: h5py
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Bump pymongo from 4.10.0 to 4.10.1 in the requirements group (#2288)

Bumps the requirements group with 1 update: [pymongo](https://github.com/mongodb/mongo-python-driver).


Updates `pymongo` from 4.10.0 to 4.10.1
- [Release notes](https://github.com/mongodb/mongo-python-driver/releases)
- [Changelog](https://github.com/mongodb/mongo-python-driver/blob/master/doc/changelog.rst)
- [Commits](https://github.com/mongodb/mongo-python-driver/compare/4.10.0...4.10.1)

---
updated-dependencies:
- dependency-name: pymongo
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Fix low contrast box titles (#2287) (#2292)

* Bump pypa/gh-action-pypi-publish in the actions group (#2304)

Bumps the actions group with 1 update: [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish).


Updates `pypa/gh-action-pypi-publish` from 1.10.2 to 1.10.3
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.10.2...v1.10.3)

---
updated-dependencies:
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: actions
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Bump the requirements group with 2 updates (#2303)

Bumps the requirements group with 2 updates: [numpy](https://github.com/numpy/numpy) and [redis](https://github.com/redis/redis-py).


Updates `numpy` from 2.1.1 to 2.1.2
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](https://github.com/numpy/numpy/compare/v2.1.1...v2.1.2)

Updates `redis` from 5.1.0 to 5.1.1
- [Release notes](https://github.com/redis/redis-py/releases)
- [Changelog](https://github.com/redis/redis-py/blob/master/CHANGES)
- [Commits](https://github.com/redis/redis-py/compare/v5.1.0...v5.1.1)

---
updated-dependencies:
- dependency-name: numpy
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
- dependency-name: redis
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* Bump numcodecs from 0.13.0 to 0.13.1 in the requirements group (#2326)

Bumps the requirements group with 1 update: [numcodecs](https://github.com/zarr-developers/numcodecs).


Updates `numcodecs` from 0.13.0 to 0.13.1
- [Release notes](https://github.com/zarr-developers/numcodecs/releases)
- [Changelog](https://github.com/zarr-developers/numcodecs/blob/main/docs/release.rst)
- [Commits](https://github.com/zarr-developers/numcodecs/compare/v0.13.0...v0.13.1)

---
updated-dependencies:
- dependency-name: numcodecs
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: requirements
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* remove zarr.types from v2

---------

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Janick Martinez Esturo <janick@jme.pub>
Co-authored-by: David Stansby <dstansby@gmail.com>
Co-authored-by: Dimitri Papadopoulos Orfanos <3234522+DimitriPapadopoulos@users.noreply.github.com>
Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>
Co-authored-by: Josh Moore <josh@openmicroscopy.org>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: jakirkham <jakirkham@gmail.com>
Co-authored-by: Jeff Peck <jeffrey.peck@10xgenomics.com>
Co-authored-by: Norman Rzepka <code@normanrz.com>
Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>
Co-authored-by: Hood Chatham <roberthoodchatham@gmail.com>
Co-authored-by: Wei Ouyang <oeway007@gmail.com>
Co-authored-by: Daniel Jahn (dahn) <dahnjahn@gmail.com>
Co-authored-by: Deepak Cherian <dcherian@users.noreply.github.com>
Co-authored-by: Ian Carroll <carroll.ian@gmail.com>
Co-authored-by: Martin Durant <martin.durant@alumni.utoronto.ca>
Co-authored-by: Ryan Abernathey <ryan.abernathey@gmail.com>
Co-authored-by: Jonny Saunders <sneakers-the-rat@protonmail.com>
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