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| Name: python313-zarr | Distribution: openSUSE Tumbleweed |
| Version: 2.18.3 | Vendor: openSUSE |
| Release: 1.2 | Build date: Wed Sep 25 08:07:45 2024 |
| Group: Unspecified | Build host: reproducible |
| Size: 3361413 | Source RPM: python-zarr-2.18.3-1.2.src.rpm |
| Packager: https://bugs.opensuse.org | |
| Url: https://github.com/zarr-developers/zarr-python | |
| Summary: An implementation of chunked, compressed, N-dimensional arrays for Python | |
An implementation of chunked, compressed, N-dimensional arrays for Python.
MIT
* Wed Sep 25 2024 Ben Greiner <[email protected]>
- Update to 2.18.3
* Update TEAM.md by @jhamman in #2071
* [v2] Fix doctests with numpy 2.0 by @dstansby in #2073
* Fix version number in built docs by @dstansby in #2044
* Fix orthogonal indexing with a scalar by @dcherian in #1947
* [v2] Drop support for Python 3.9 by @dstansby in #2074
* Fix Array.array for numpy 2.1 by @dstansby in #2106
* Bump test version of numcodecs by @dstansby in #2114
* fix: numpy 1.24 compat for Array.array by @jhamman in #2123
* Deprecate N5Store by @jhamman in #2103
* Run tests on numpy 1.23 by @dstansby in #2124
* chore: bump minimum numpy version to 1.24 by @jhamman in #2127
- Revert the numpy1 restriction
- Add zarr-numcodecs-zstd-test.patch:
* Allow older numcodecs < 0.13 in zstd tests
* Overrides gh#zarr-developers/zarr-python#2114
* Mon Sep 23 2024 ecsos <[email protected]>
- Fix build error and use numpy1
* Sat Jun 29 2024 Dirk Müller <[email protected]>
- update to 2.18.2:
* Add Zstd codec to old V3 code path.
* Fix a regression when getting or setting a single value from
arrays with size-1 chunks.
* Wed May 08 2024 Dirk Müller <[email protected]>
- update to 2.18.0:
* Performance improvement for reading and writing chunks if any
of the dimensions is size 1.
* Enable ruff/bugbear rules (B) and fix issues.
* Minor updates to use np.inf instead of np.PINF / np.NINF in
preparation for NumPy 2.0.0 release.
* Deprecate experimental v3 support by issuing a FutureWarning.
Also updated docs to warn about using the experimental v3
version.
* Deprecate the following stores:
:class:`zarr.storage.DBMStore`,
:class:`zarr.storage.LMDBStore`,
:class:`zarr.storage.SQLiteStore`,
:class:`zarr.storage.MongoDBStore`,
:class:`zarr.storage.RedisStore`, and
:class:`zarr.storage.ABSStore`. These stores are slated to be
removed from Zarr-Python in version 3.0.
* Sat Apr 20 2024 Dirk Müller <[email protected]>
- update to 2.17.2:
* [v3] Dramatically reduce number of __contains__ requests in
favor of optimistically calling __getitem__ and handling any
error that may arise.
* [v3] Reuse the downloaded array metadata when creating an
Array.
* Optimize Array.info so that it calls getsize only once.
* Override IPython _repr_*_ methods to avoid expensive lookups
against object stores.
* FSStore now raises rather than return bad data.
* Add CI test environment for Python 3.12
* Bump minimum supported NumPy version to 1.23 (per spec 0000)
* Sat Mar 16 2024 Ben Greiner <[email protected]>
- Update to 2.17.1
* Change occurrences of % and format() to f-strings. By Dimitri
Papadopoulos Orfanos #1423.
* Proper argument for numpy.reshape. By Dimitri Papadopoulos
Orfanos #1425.
* Add typing to dimension separator arguments. By David Stansby
[#1620].
- Release 2.17.0
* Added type hints to zarr.creation.create(). By David Stansby
[#1536].
* Pyodide support: Don’t require fasteners on Emscripten. By Hood
Chatham #1663.
* Fri Jan 19 2024 Daniel Garcia <[email protected]>
- skip broken tests in s390x, gh#zarr-developers/zarr-python#1375
bsc#1218611
* Wed Dec 27 2023 Dirk Müller <[email protected]>
- update to 2.16.1:
* Require ``setuptools_scm`` version ``1.5.4``\+
* Add ``docs`` requirements to ``pyproject.toml``
* Fixed caching issue in ``LRUStoreCache``.
* Tue Aug 01 2023 Markéta Machová <[email protected]>
- update to version 2.16
* Migrate to pyproject.toml and remove redundant infrastructure.
* Require setuptools 64.0.0+
* Bump to NumPy 1.20+ in environment.yml.
* More maintenance changes, special thanks to Outreachy participants
for contributing to most of the maintenance PRs.
* Improve Zarr V3 support, adding partial store read/write and
storage transformers.
* N5 nows supports Blosc. Remove warnings emitted when using N5Store
or N5FSStore with a blosc-compressed array.
* Implement more extensive fallback of getitem/setitem for
orthogonal indexing.
* Getitems supports meta_array.
* Allow for partial codec specification in V3 array metadata.
* Implemented blockwise (chunk blocks) indexing to zarr.Array.
* Thu Jul 27 2023 Dirk Müller <[email protected]>
- set python311 context for SLE15
* Sun Oct 09 2022 Arun Persaud <[email protected]>
- update to version 2.13.3:
* Improve performance of slice selections with steps by omitting
chunks with no relevant data. By Richard Shaw #843.
* Wed Sep 28 2022 Arun Persaud <[email protected]>
- update to version 2.13.2:
* Fix test failure on conda-forge builds (again). By :user:`Josh
Moore <joshmoore>`; see zarr-feedstock#65.
* Tue Sep 27 2022 Arun Persaud <[email protected]>
- update to version 2.13.1:
* Fix test failure on conda-forge builds. By Josh Moore; see
zarr-feedstock#65.
* Sun Sep 25 2022 Arun Persaud <[email protected]>
- specfile:
* requrie python >= 3.8
- update to version 2.13.0:
* Major changes
+ Support of alternative array classes by introducing a new
argument, meta_array, that specifies the type/class of the
underlying array. The meta_array argument can be any class
instance that can be used as the like argument in NumPy (see NEP
35). enabling support for CuPy through, for example, the
creation of a CuPy CPU compressor. By Mads R. B. Kristensen
[#934].
+ Remove support for Python 3.7 in concert with NumPy
dependency. By Davis Bennett #1067.
+ Zarr v3: add support for the default root path rather than
requiring that all API users pass an explicit path. By Gregory
R. Lee #1085, #1142.
* Bug fixes
+ Remove/relax erroneous “meta” path check (regression). By
Gregory R. Lee #1123.
+ Cast all attribute keys to strings (and issue deprecation
warning). By Mattia Almansi #1066.
+ Fix bug in N5 storage that prevented arrays located in the root
of the hierarchy from bearing the n5 keyword. Along with fixing
this bug, new tests were added for N5 routines that had
previously been excluded from testing, and type annotations were
added to the N5 codebase. By Davis Bennett #1092.
+ Fix bug in LRUEStoreCache in which the current size wasn’t reset
on invalidation. By BGCMHou and Josh Moore #1076, #1077.
+ Remove erroneous check that disallowed array keys starting with
“meta”. By Gregory R. Lee #1105.
* Documentation
+ Typo fixes to close quotes. By Pavithra Eswaramoorthy
+ Added copy button to documentation. By Altay Sansal #1124.
* Maintenance
+ Simplify release docs. By Josh Moore #1119.
+ Pin werkzeug to prevent test hangs. By Davis Bennett #1098.
+ Fix a few DeepSource.io alerts By Dimitri Papadopoulos Orfanos
[#1080].
+ Fix URLs. By Dimitri Papadopoulos Orfanos, #1074.
+ Fix spelling. By Dimitri Papadopoulos Orfanos, #1073.
+ Update GitHub issue templates with YAML format. By Saransh
Chopra #1079.
+ Remove option to return None from _ensure_store. By Greggory Lee
[#1068].
+ Fix a typo of “integers”. By Richard Scott #1056.
* Sun Aug 21 2022 Arun Persaud <[email protected]>
- specfile:
* update copyright year
- update to version 2.12.0:
* Enhancements
+ Add support for reading and writing Zarr V3. The new
zarr._store.v3 package has the necessary classes and functions
for evaluating Zarr V3. Since the format is not yet finalized,
the classes and functions are not automatically imported into
the regular zarr name space. Setting the
ZARR_V3_EXPERIMENTAL_API environment variable will activate
them. By Greggory Lee; #898, #1006, and #1007 as well as by Josh
Moore #1032.
+ Create FSStore from an existing fsspec filesystem. If you have
created an fsspec filesystem outside of Zarr, you can now pass
it as a keyword argument to FSStore. By Ryan Abernathey; #911.
+ Add numpy encoder class for json.dumps By Eric Prestat; #933.
+ Appending performance improvement to Zarr arrays, e.g., when
writing to S3. By hailiangzhang; #1014.
+ Add number encoder for json.dumps to support numpy intergers in
chunks arguments. By Eric Prestat #697.
* Bug fixes
+ Fix bug that made it impossible to create an FSStore on
unlistable filesystems (e.g. some HTTP servers). By Ryan
Abernathey; #993.
* Documentation
+ Update resize doc to clarify surprising behavior. By
hailiangzhang; #1022.
* Maintenance
+ Added Pre-commit configuration, incl. Yaml Check. By Shivank
Chaudhary; #1015, #1016.
+ Fix URL to renamed file in Blosc repo. By Andrew Thomas #1028.
+ Activate Py 3.10 builds. By Josh Moore #1027.
+ Make all unignored zarr warnings errors. By Josh Moore #1021.
- changes from version 2.11.3:
* Bug fixes
+ Fix missing case to fully revert change to default
write_empty_chunks. By Tom White; #1005.
- changes from version 2.11.2:
* Bug fixes
+ Changes the default value of write_empty_chunks to True to
prevent unanticipated data losses when the data types do not
have a proper default value when empty chunks are read back
in. By Vyas Ramasubramani; #965, #1001.
- changes from version 2.11.1:
* Bug fixes
+ Fix bug where indexing with a scalar numpy value returned a
single-value array. By Ben Jeffery #967.
+ Removed clobber argument from normalize_store_arg. This enables
to change data within a opened consolidated group using mode
“r+” (i.e region write). By Tobias Kölling #975.
- changes from version 2.11.0:
* Enhancements
+ Sparse changes with performance impact! One of the advantages of
the Zarr format is that it is sparse, which means that chunks
with no data (more precisely, with data equal to the fill value,
which is usually 0) don’t need to be written to disk at
all. They will simply be assumed to be empty at read
time. However, until this release, the Zarr library would write
these empty chunks to disk anyway. This changes in this version:
a small performance penalty at write time leads to significant
speedups at read time and in filesystem operations in the case
of sparse arrays. To revert to the old behavior, pass the
argument write_empty_chunks=True to the array creation
function. By Juan Nunez-Iglesias; #853 and Davis Bennett; #738.
+ Fancy indexing. Zarr arrays now support NumPy-style fancy
indexing with arrays of integer coordinates. This is equivalent
to using zarr.Array.vindex. Mixing slices and integer arrays is
not supported. By Juan Nunez-Iglesias; #725.
+ New base class. This release of Zarr Python introduces a new
BaseStore class that all provided store classes implemented in
Zarr Python now inherit from. This is done as part of
refactoring to enable future support of the Zarr version 3
spec. Existing third-party stores that are a MutableMapping
(e.g. dict) can be converted to a new-style key/value store
inheriting from BaseStore by passing them as the argument to the
new zarr.storage.KVStore class. For backwards compatibility,
various higher-level array creation and convenience functions
still accept plain Python dicts or other mutable mappings for
the store argument, but will internally convert these to a
KVStore. By Greggory Lee; #839, #789, and #950.
+ Allow to assign array fill_values and update metadata
accordingly. By Ryan Abernathey, #662.
+ Allow to update array fill_values By Matthias Bussonnier #665.
* Bug fixes
+ Fix bug where the checksum of zipfiles is wrong By Oren Watson
[#930].
+ Fix consolidate_metadata with FSStore. By Joe Hamman #916.
+ Unguarded next inside generator. By Dimitri Papadopoulos Orfanos
[#889].
* Documentation
+ Update docs creation of dev env. By Ray Bell #921.
+ Update docs to use python -m pytest. By Ray Bell #923.
+ Fix versionadded tag in zarr.core.Array docstring. By Juan
Nunez-Iglesias #852.
+ Doctest seem to be stricter now, updating tostring() to
tobytes(). By John Kirkham #907.
+ Minor doc fix. By Mads R. B. Kristensen #937.
* Maintenance
+ Upgrade MongoDB in test env. By Joe Hamman #939.
+ Pass dimension_separator on fixture generation. By Josh Moore
[#858].
+ Activate Python 3.9 in GitHub Actions. By Josh Moore #859.
+ Drop shortcut fsspec[s3] for dependency. By Josh Moore #920.
+ and a swath of code-linting improvements by Dimitri Papadopoulos
Orfanos:
o Unnecessary comprehension (#899)
o Unnecessary None provided as default (#900)
o use an if expression instead of and/or (#888)
o Remove unnecessary literal (#891)
o Decorate a few method with @staticmethod (#885)
o Drop unneeded return (#884)
o Drop explicit object inheritance from class-es (#886)
o Unnecessary comprehension (#883)
o Codespell configuration (#882)
o Fix typos found by codespell (#880)
o Proper C-style formatting for integer (#913)
o Add LGTM.com / DeepSource.io configuration files (#909)
- changes from version 2.10.3:
* Bug fixes
+ N5 keywords now emit UserWarning instead of raising a
ValueError. By Boaz Mohar; #860.
+ blocks_to_decompress not used in read_part function. By Boaz
Mohar; #861.
+ defines blocksize for array, updates hexdigest values. By Andrew
Fulton; #867.
+ Fix test failure on Debian and conda-forge builds. By Josh
Moore; #871.
- changes from version 2.10.2:
* Bug fixes
+ Fix NestedDirectoryStore datasets without dimension_separator
metadata. By Josh Moore; #850.
- changes from version 2.10.1:
* Bug fixes
+ Fix regression by setting normalize_keys=False in fsstore
constructor. By Davis Bennett; #842.
- changes from version 2.10.0:
* Enhancements
+ Add N5FSStore. By Davis Bennett; #793.
* Bug fixes
+ Ignore None dim_separators in save_array. By Josh Moore; #831.
* Wed Sep 01 2021 Matej Cepl <[email protected]>
- Update to 2.9.5:
- Fix FSStore.listdir behavior for nested directories (replaces
now unnecessary skip-825-TestFSStore-test_create.patch).
- Fix structured arrays that contain objects (which replaces
zarr-pr802-fsspec-2021-07.patch).
* Sat Aug 28 2021 Matej Cepl <[email protected]>
- Update to 2.9.3:
- Mark the fact that some tests that require fsspec, without
compromising the code coverage score. By Ben Williams; #823.
- Only inspect alternate node type if desired isn’t
present. By Trevor Manz; #696.
- Correct conda-forge deployment of Zarr by fixing some Zarr
tests. By Ben Williams; #821.
- Add skip-825-TestFSStore-test_create.patch
(gh#zarr-developers/zarr-python#825).
* Mon Aug 23 2021 Ben Greiner <[email protected]>
- Update to version 2.9.0
* This release of Zarr Python is the first release of Zarr to not
support Python 3.6.
* Update ABSStore for compatibility with newer azure.storage.
blob.
* Pathlib support.
* Fix dimension_separator support.
* Extract ABSStore to zarr._storage.absstore.
* TST: add missing assert in test_hexdigest.
- Add zarr-pr802-fsspec-2021-07.patch
* gh#zarr-developers/zarr-python#802
* gh#zarr-developers/zarr-python#812
* Fri Jul 16 2021 Ben Greiner <[email protected]>
- Update to v2.8.3
* FSStore: default to normalize_keys=False
- Release 2.8.2
* Add section on rechunking to tutorial
* Expand FSStore tests and fix implementation issues
* Updated ipytree warning for jlab3
* Update Python classifiers (Zarr is stable!)
- Release 2.8.1
* raise an error if create_dataset’s dimension_separator is
inconsistent
- Release 2.8.0
* V2 Specification Update
* Introduce optional dimension_separator .zarray key for nested
chunks.
- Release 2.7.1
* Update Array to respect FSStore’s key_separator (#718)
- Release 2.7.0
* Start stop for iterator (islice())
* Add capability to partially read and decompress chunks
* Make DirectoryStore __setitem__ resilient against antivirus
file locking
* Compare test data’s content generally
* Fix dtype usage in zarr/meta.py
* Fix FSStore key_seperator usage
* Simplify text handling in DB Store
* Wed Feb 17 2021 Ben Greiner <[email protected]>
- Requires numpy: NEP 29, NumPy 1.20 in TW dropped Python 3.6
support. Skip python36 build.
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