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V3 main sync w/ merge #2335
V3 main sync w/ merge #2335
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…rs#1586) Bumps [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish) from 1.8.10 to 1.8.11. - [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases) - [Commits](pypa/gh-action-pypi-publish@v1.8.10...v1.8.11) --- updated-dependencies: - dependency-name: pypa/gh-action-pypi-publish dependency-type: direct:production 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>
…pers#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) - [Changelog](https://github.com/conda-incubator/setup-miniconda/blob/main/CHANGELOG.md) - [Commits](conda-incubator/setup-miniconda@v2.3.0...v3.0.1) --- updated-dependencies: - dependency-name: conda-incubator/setup-miniconda dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Prevent runtime-overhead in doing this check multiple times
Even if this is only a test, list comprehensions are faster than repeatedly call append(). Also use tuple instead of list when possible. Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>
Bumps [numcodecs](https://github.com/zarr-developers/numcodecs) from 0.11.0 to 0.12.1. - [Release notes](https://github.com/zarr-developers/numcodecs/releases) - [Changelog](https://github.com/zarr-developers/numcodecs/blob/main/docs/release.rst) - [Commits](zarr-developers/numcodecs@v0.11.0...v0.12.1) --- updated-dependencies: - dependency-name: numcodecs dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Joe Hamman <joe@earthmover.io>
…ers#1558) Co-authored-by: Joe Hamman <joe@earthmover.io>
It's faster and probably more readable. Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com> Co-authored-by: Joe Hamman <joe@earthmover.io>
Bumps [pymongo](https://github.com/mongodb/mongo-python-driver) from 4.5.0 to 4.6.1. - [Release notes](https://github.com/mongodb/mongo-python-driver/releases) - [Changelog](https://github.com/mongodb/mongo-python-driver/blob/master/doc/changelog.rst) - [Commits](mongodb/mongo-python-driver@4.5.0...4.6.1) --- updated-dependencies: - dependency-name: pymongo dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Joe Hamman <joe@earthmover.io>
Starting with codespell 2.2.2, options can be specified in `pyrpoject.toml` in addition to `setup.cfg`: https://github.com/codespell-project/codespell#using-a-config-file Specifying options in a config file instead of command line options in `.pre-commit-config.yaml` ensures codespell uses the same options when run as pre-commit hook or from the command line in the repository root directory.
* Bump fsspec from 2023.10.0 to 2023.12.1 Bumps [fsspec](https://github.com/fsspec/filesystem_spec) from 2023.10.0 to 2023.12.1. - [Commits](fsspec/filesystem_spec@2023.10.0...2023.12.1) --- updated-dependencies: - dependency-name: fsspec dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> * Update s3fs as well * Fix s3fs --------- 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>
* 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 * Fix chunk typing --------- Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>
Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 4.7.1 to 5.0.0. - [Release notes](https://github.com/actions/setup-python/releases) - [Commits](actions/setup-python@v4.7.1...v5.0.0) --- updated-dependencies: - dependency-name: actions/setup-python dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Joe Hamman <joe@earthmover.io>
Bumps [github/codeql-action](https://github.com/github/codeql-action) from 2 to 3. - [Release notes](https://github.com/github/codeql-action/releases) - [Changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md) - [Commits](github/codeql-action@v2...v3) --- updated-dependencies: - dependency-name: github/codeql-action dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* chore: update pre-commit hooks updates: - https://github.com/charliermarsh/ruff-pre-commit → https://github.com/astral-sh/ruff-pre-commit - [github.com/astral-sh/ruff-pre-commit: v0.0.224 → v0.1.8](astral-sh/ruff-pre-commit@v0.0.224...v0.1.8) - [github.com/psf/black: 23.10.1 → 23.12.0](psf/black@23.10.1...23.12.0) - [github.com/codespell-project/codespell: v2.2.5 → v2.2.6](codespell-project/codespell@v2.2.5...v2.2.6) - [github.com/pre-commit/pre-commit-hooks: v4.4.0 → v4.5.0](pre-commit/pre-commit-hooks@v4.4.0...v4.5.0) - [github.com/pre-commit/mirrors-mypy: v1.3.0 → v1.7.1](pre-commit/mirrors-mypy@v1.3.0...v1.7.1) * Attempt to fix ruff * Use isinstance --------- Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: Josh Moore <josh@openmicroscopy.org>
updates: - [github.com/astral-sh/ruff-pre-commit: v0.1.8 → v0.1.9](astral-sh/ruff-pre-commit@v0.1.8...v0.1.9) - [github.com/psf/black: 23.12.0 → 23.12.1](psf/black@23.12.0...23.12.1) - [github.com/pre-commit/mirrors-mypy: v1.7.1 → v1.8.0](pre-commit/mirrors-mypy@v1.7.1...v1.8.0) Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
* Bump fsspec from 2023.12.1 to 2023.12.2 Bumps [fsspec](https://github.com/fsspec/filesystem_spec) from 2023.12.1 to 2023.12.2. - [Commits](fsspec/filesystem_spec@2023.12.1...2023.12.2) --- updated-dependencies: - dependency-name: fsspec dependency-type: direct:development update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com> * Update requirements_dev_optional.txt --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Joe Hamman <joe@earthmover.io>
Bumps [pytest-doctestplus](https://github.com/scientific-python/pytest-doctestplus) from 1.0.0 to 1.1.0. - [Release notes](https://github.com/scientific-python/pytest-doctestplus/releases) - [Changelog](https://github.com/scientific-python/pytest-doctestplus/blob/main/CHANGES.rst) - [Commits](scientific-python/pytest-doctestplus@v1.0.0...v1.1.0) --- updated-dependencies: - dependency-name: pytest-doctestplus dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
updates: - [github.com/astral-sh/ruff-pre-commit: v0.1.9 → v0.1.11](astral-sh/ruff-pre-commit@v0.1.9...v0.1.11) Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
* 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 837854b. * Update release.rst --------- Co-authored-by: Joe Hamman <joe@earthmover.io> Co-authored-by: jakirkham <jakirkham@gmail.com>
updates: - [github.com/astral-sh/ruff-pre-commit: v0.1.11 → v0.1.13](astral-sh/ruff-pre-commit@v0.1.11...v0.1.13) Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
* Bump actions/download-artifact from 3 to 4 Bumps [actions/download-artifact](https://github.com/actions/download-artifact) from 3 to 4. - [Release notes](https://github.com/actions/download-artifact/releases) - [Commits](actions/download-artifact@v3...v4) --- updated-dependencies: - dependency-name: actions/download-artifact dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> * 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. --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Joe Hamman <joe@earthmover.io> Co-authored-by: Josh Moore <josh@openmicroscopy.org>
zarr-developers#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: zarr-developers#1613 * Update release.rst * Implement d-v-b's suggestions --------- Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com> Co-authored-by: Josh Moore <josh@openmicroscopy.org>
* 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 Co-authored-by: Norman Rzepka <code@normanrz.com> * Update v3-roadmap-and-design.md Co-authored-by: Sanket Verma <svsanketverma5@gmail.com> --------- Co-authored-by: Norman Rzepka <code@normanrz.com> Co-authored-by: Sanket Verma <svsanketverma5@gmail.com>
updates: - [github.com/astral-sh/ruff-pre-commit: v0.1.13 → v0.1.14](astral-sh/ruff-pre-commit@v0.1.13...v0.1.14) Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
This patch removes fasteners and disables zarr.sync which uses process and thread Co-authored-by: Wei Ouyang <oeway007@gmail.com>
…evelopers#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](numpy/numpy@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](jupyter-widgets/ipywidgets@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](Azure/azure-sdk-for-python@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 version to 1.24 * Update .github/workflows/python-package.yml
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](actions/setup-python@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](pypa/gh-action-pypi-publish@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>
…pers#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](numpy/numpy@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>
… group (zarr-developers#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](pypa/gh-action-pypi-publish@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>
* remove primary sidebar from tutorial * lint
…opers#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](pytest-dev/pytest@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>
…s#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](pypa/gh-action-pypi-publish@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>
…evelopers#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](redis/redis-py@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](mongodb/mongo-python-driver@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](h5py/h5py@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>
…velopers#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](mongodb/mongo-python-driver@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>
…s#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](pypa/gh-action-pypi-publish@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>
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](numpy/numpy@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](redis/redis-py@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>
…developers#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](zarr-developers/numcodecs@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>
…into v3-main-sync-merge
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Nice, all of these look like good updates to make!
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Is this still useful to have around? Or worth removing at this point? Happy either way, just asking the question :)
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I'd like to keep it here for now. In the future, we may evolve this to be a roadmap page in the docs.
This was not as bad as I thought it would be:
Supersedes #2330
Toward #2308