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zarr-python

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chore: refine link checker configuration (#4158)

main

4 days ago

test: bind moto server to an ephemeral port to fix xdist deadlock (#4139) * chore(deps): bump the actions group across 1 directory with 8 updates (#176) Bumps the actions group with 8 updates in the / directory: | Package | From | To | | --- | --- | --- | | [prefix-dev/setup-pixi](https://github.com/prefix-dev/setup-pixi) | `0.9.5` | `0.9.6` | | [codecov/codecov-action](https://github.com/codecov/codecov-action) | `6.0.0` | `6.0.1` | | [github/issue-metrics](https://github.com/github/issue-metrics) | `4.2.2` | `4.2.7` | | [j178/prek-action](https://github.com/j178/prek-action) | `2.0.3` | `2.0.4` | | [actions/upload-artifact](https://github.com/actions/upload-artifact) | `7.0.0` | `7.0.1` | | [actions/download-artifact](https://github.com/actions/download-artifact) | `7.0.0` | `8.0.1` | | [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish) | `1.13.0` | `1.14.0` | | [zizmorcore/zizmor-action](https://github.com/zizmorcore/zizmor-action) | `0.5.3` | `0.5.6` | Updates `prefix-dev/setup-pixi` from 0.9.5 to 0.9.6 - [Release notes](https://github.com/prefix-dev/setup-pixi/releases) - [Commits](https://github.com/prefix-dev/setup-pixi/compare/1b2de7f3351f171c8b4dfeb558c639cb58ed4ec0...5185adfbffb4bd703da3010310260805d89ebb11) Updates `codecov/codecov-action` from 6.0.0 to 6.0.1 - [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/57e3a136b779b570ffcdbf80b3bdc90e7fab3de2...e79a6962e0d4c0c17b229090214935d2e33f8354) Updates `github/issue-metrics` from 4.2.2 to 4.2.7 - [Release notes](https://github.com/github/issue-metrics/releases) - [Commits](https://github.com/github/issue-metrics/compare/c9e9838147fd355dace335ba787f01b6641a400a...1e38d5e62363e14db8019ed7d106b9855bdba6cc) Updates `j178/prek-action` from 2.0.3 to 2.0.4 - [Release notes](https://github.com/j178/prek-action/releases) - [Commits](https://github.com/j178/prek-action/compare/6ad80277337ad479fe43bd70701c3f7f8aa74db3...bdca6f102f98e2b4c7029491a53dfd366469e33d) Updates `actions/upload-artifact` from 7.0.0 to 7.0.1 - [Release notes](https://github.com/actions/upload-artifact/releases) - [Commits](https://github.com/actions/upload-artifact/compare/v7...043fb46d1a93c77aae656e7c1c64a875d1fc6a0a) Updates `actions/download-artifact` from 7.0.0 to 8.0.1 - [Release notes](https://github.com/actions/download-artifact/releases) - [Commits](https://github.com/actions/download-artifact/compare/v7...3e5f45b2cfb9172054b4087a40e8e0b5a5461e7c) Updates `pypa/gh-action-pypi-publish` from 1.13.0 to 1.14.0 - [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases) - [Commits](https://github.com/pypa/gh-action-pypi-publish/compare/v1.13.0...cef221092ed1bacb1cc03d23a2d87d1d172e277b) Updates `zizmorcore/zizmor-action` from 0.5.3 to 0.5.6 - [Release notes](https://github.com/zizmorcore/zizmor-action/releases) - [Commits](https://github.com/zizmorcore/zizmor-action/compare/b1d7e1fb5de872772f31590499237e7cce841e8e...5f14fd08f7cf1cb1609c1e344975f152c7ee938d) --- updated-dependencies: - dependency-name: prefix-dev/setup-pixi dependency-version: 0.9.6 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: actions - dependency-name: codecov/codecov-action dependency-version: 6.0.1 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: actions - dependency-name: github/issue-metrics dependency-version: 4.2.7 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: actions - dependency-name: j178/prek-action dependency-version: 2.0.4 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: actions - dependency-name: actions/upload-artifact dependency-version: 7.0.1 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: actions - dependency-name: actions/download-artifact dependency-version: 8.0.1 dependency-type: direct:production update-type: version-update:semver-major dependency-group: actions - dependency-name: pypa/gh-action-pypi-publish dependency-version: 1.14.0 dependency-type: direct:production update-type: version-update:semver-minor dependency-group: actions - dependency-name: zizmorcore/zizmor-action dependency-version: 0.5.6 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> * test: bind moto server to an ephemeral port to fix xdist deadlock The session-scoped moto_server fixture bound a fixed port (5555). Under pytest-xdist, session-scoped fixtures run once per worker, so concurrent workers raced to bind the same port. The losers blocked forever inside ThreadedMotoServer.start(): its werkzeug thread dies on "Address already in use" before setting the ready event that start() waits on, and the wait has no timeout. Any multi-worker run whose s3 tests landed on 2+ workers deadlocked near the end of the suite at 0% CPU. CI never saw this because it runs the suite single-process. Bind port 0 instead and yield the actual endpoint from the fixture. Since the endpoint is now only known at runtime, test_fsspec.py's module-level endpoint_url constant becomes an endpoint_url fixture (replacing the s3_base alias), and its consumers take it as a parameter. With this fix the full suite completes in ~1 minute under -n auto on a 10-core machine, where it previously hung indefinitely. Assisted-by: ClaudeCode:claude-fable-5 * doc: add changelog fragment for moto ephemeral-port fix Assisted-by: ClaudeCode:claude-fable-5 --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

main

11 days ago

fix: keep element order when writing F-contiguous chunks with vlen codecs (#4116) * fix: keep element order when writing F-contiguous chunks with vlen codecs The numcodecs vlen codecs flatten their input with order='A', so an F-contiguous object-dtype chunk is encoded in transposed element order while decode reshapes in C order, silently scrambling the round-trip. Make both vlen codec wrappers pass a C-contiguous array to numcodecs; this copies only the object-pointer array and only when the chunk is not already C-contiguous. * docs: add changelog entry * fix: keep element order for numcodecs filter codecs too The generic numcodecs adapter codecs pass the chunk to numcodecs unchanged, so F-contiguous chunks hit the same order='A' flattening as the vlen codecs: Delta, FixedScaleOffset and PackBits all round-trip transposed data for an F-contiguous chunk that exactly covers the selection. Apply the same C-contiguity normalization in the array-array and array-bytes adapter encode paths. --------- Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>

main

18 days ago

docs: add reviewer guidance and author attestation to PR template (#4106) * docs: add reviewer guidance and author attestation to PR template * docs: recommend conventional commits style PR titles * docs: change example

main

25 days ago

chore(deps): bump pydantic-settings from 2.14.1 to 2.14.2 (#4089) Bumps [pydantic-settings](https://github.com/pydantic/pydantic-settings) from 2.14.1 to 2.14.2. - [Release notes](https://github.com/pydantic/pydantic-settings/releases) - [Commits](https://github.com/pydantic/pydantic-settings/compare/v2.14.1...v2.14.2) --- updated-dependencies: - dependency-name: pydantic-settings dependency-version: 2.14.2 dependency-type: indirect ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

main

1 month ago

fix: update OSPO action references to canonical org path (#3856) The OSPO actions have moved from github/ to github-community-projects/. Update workflow references to use the canonical org path. Co-authored-by: Copilot <223556219+Copilot@users.noreply.github.com> Co-authored-by: Davis Bennett <davis.v.bennett@gmail.com>

main

1 month ago

Merge branch 'perf-sharding-coord-cache' of github.com:d-v-b/zarr-python into perf-sharding-coord-cache

d-v-b:perf-sharding-coord-cache

1 month ago

Merge branch 'main' into perf/prepared-write-v2

d-v-b:perf/prepared-write-v2

1 month ago

Latest Branches

×5.4

perf: cache lexicographic chunk coords in sharding codec#4012

1 month ago

c8e1ffa

d-v-b:perf-sharding-coord-cache

×3.3

perf: use sync methods for chunk encoding / decoding#3885

1 month ago

48ab6be

d-v-b:perf/prepared-write-v2

0%

perf: try `pread` like `zarrs`'s use of `File::read_exact_at`#4039

2 months ago

72cb294

ig/pread

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