[MNT] Bump the python-packages group across 1 directory with 5 updates

[dependabot]

Updates the requirements on numba, numpy, scikit-learn, scipy and keras to permit the latest version.
Updates numba to 0.60.0

Release notes

Sourced from numba's releases.

0.60.0

Major Numba release.

Commits

• 53e976f Merge pull request #9620 from esc/cherry-pick/rc-bugfixes-for-0.60.0-final
• 6cee88e add remaining PRs that were cherry-picked
• 38beff8 update change log
• 5e6270a update version support table with release date
• ff2e495 Merge pull request #9603 from sklam/fix/avx512nocona
• 48faddf Merge pull request #9602 from sklam/fix/np2compat
• 7d1976f Merge pull request #9586 from sklam/fix/bug9581
• b3dc3df Merge pull request #9596 from kc611/import-issue
• 056012a Added tests
• 08bfe07 Added inline_closurecall as an import during registry loading
• Additional commits viewable in compare view

Updates numpy to 2.0.0

Release notes

Sourced from numpy's releases.

v2.0.0

NumPy 2.0.0 Release Notes

NumPy 2.0.0 is the first major release since 2006. It is the result of 11 months of development since the last feature release and is the work of 212 contributors spread over 1078 pull requests. It contains a large number of exciting new features as well as changes to both the Python and C APIs.

This major release includes breaking changes that could not happen in a regular minor (feature) release - including an ABI break, changes to type promotion rules, and API changes which may not have been emitting deprecation warnings in 1.26.x. Key documents related to how to adapt to changes in NumPy 2.0, in addition to these release notes, include:

• The numpy-2-migration-guide
• The Numpy 2.0-specific advice in for downstream package authors

Highlights

Highlights of this release include:

• New features:
  • A new variable-length string dtype, numpy.dtypes.StringDType and a new numpy.strings namespace with performant ufuncs for string operations,
  • Support for float32 and longdouble in all numpy.fft functions,
  • Support for the array API standard in the main numpy namespace.
• Performance improvements:
  • Sorting functions sort, argsort, partition, argpartition have been accelerated through the use of the Intel x86-simd-sort and Google Highway libraries, and may see large (hardware-specific) speedups,
  • macOS Accelerate support and binary wheels for macOS >=14, with significant performance improvements for linear algebra operations on macOS, and wheels that are about 3 times smaller,
  • numpy.char fixed-length string operations have been accelerated by implementing ufuncs that also support numpy.dtypes.StringDType in addition to the fixed-length string dtypes,
  • A new tracing and introspection API, numpy.lib.introspect.opt_func_info, to determine which hardware-specific kernels are available and will be dispatched to.
  • numpy.save now uses pickle protocol version 4 for saving arrays with object dtype, which allows for pickle objects larger than 4GB and improves saving speed by about 5% for large arrays.
• Python API improvements:

... (truncated)

Commits

• 1d49c7f Merge pull request #26698 from charris/prepare-2.0.0
• 2103511 DOC: Remove duplicate in author list.
• db8030e BUG: Change cibuildwheel version [wheel build]
• 1a68264 REL: Prepare for the NumPy 2.0.0 release [wheel build]
• c8665ba Merge pull request #26696 from charris/backport-26582
• 103f4dd Merge pull request #26697 from charris/backport-25963
• c193dcd Merge pull request #26695 from charris/backport-26667
• 8fa8191 BUG: Fix bug in numpy.pad() (#25963)
• ece3559 BUG: weighted nanpercentile, nanquantile and multi-dim q (#26582)
• b31e195 BUG: Adds asanyarray to start of linalg.cross (#26667)
• Additional commits viewable in compare view

Updates scikit-learn to 1.5.1

Release notes

Sourced from scikit-learn's releases.

Scikit-learn 1.5.1

We're happy to announce the 1.5.1 release.

This release contains fixes for a few regressions introduced in 1.5.

You can see the changelog here: https://scikit-learn.org/stable/whats_new/v1.5.html#version-1-5-1

You can upgrade with pip as usual:

pip install -U scikit-learn

The conda-forge builds can be installed using:

conda install -c conda-forge scikit-learn

Thanks to everyone who contributed to this release !

Commits

• 70fdc84 Bump version [cd build]
• b0ec847 DOC Add missing PR number in changelog entry (#29384)
• 8179b8f DOC Set 1.5.1 release month (#29377)
• 851c0d6 FIX: accuracy and zero_loss support for multilabel with Array API (#29336)
• 99d8a32 FIX zero_one_loss breaks with multilabel and Array API (#29269)
• 059070b ENH Add Array API compatibility to cosine_similarity (#29014)
• ada571f Fix a regression in GridSearchCV for parameter grids that have arrays of diff...
• fb26476 🔒 🤖 CI Update lock files for cirrus-arm CI build(s) 🔒 🤖...
• 5a74cc0 Fix performance regression in ColumnTransformer (#29330)
• c3d69b2 MAINT Pin the ruff version on CI linters (#29359)
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Updates scipy to 1.14.0

Release notes

Sourced from scipy's releases.

SciPy 1.14.0 Release Notes

SciPy 1.14.0 is the culmination of 3 months of hard work. It contains many new features, numerous bug-fixes, improved test coverage and better documentation. There have been a number of deprecations and API changes in this release, which are documented below. All users are encouraged to upgrade to this release, as there are a large number of bug-fixes and optimizations. Before upgrading, we recommend that users check that their own code does not use deprecated SciPy functionality (to do so, run your code with python -Wd and check for DeprecationWarning s). Our development attention will now shift to bug-fix releases on the 1.14.x branch, and on adding new features on the main branch.

This release requires Python 3.10+ and NumPy 1.23.5 or greater.

For running on PyPy, PyPy3 6.0+ is required.

Highlights of this release

• SciPy now supports the new Accelerate library introduced in macOS 13.3, and has wheels built against Accelerate for macOS >=14 resulting in significant performance improvements for many linear algebra operations.
• A new method, cobyqa, has been added to scipy.optimize.minimize - this is an interface for COBYQA (Constrained Optimization BY Quadratic Approximations), a derivative-free optimization solver, designed to supersede COBYLA, developed by the Department of Applied Mathematics, The Hong Kong Polytechnic University.
• scipy.sparse.linalg.spsolve_triangular is now more than an order of magnitude faster in many cases.

New features

scipy.fft improvements

• A new function, scipy.fft.prev_fast_len, has been added. This function finds the largest composite of FFT radices that is less than the target length. It is useful for discarding a minimal number of samples before FFT.

scipy.io improvements

• wavfile now supports reading and writing of wav files in the RF64 format, allowing files greater than 4 GB in size to be handled.

scipy.constants improvements

• Experimental support for the array API standard has been added.

... (truncated)

Commits

• 87c4664 REL: SciPy 1.14.0 rel commit [wheel build]
• ac63c81 Merge pull request #21019 from tylerjereddy/treddy_1.14.0_final_backports
• 541003f DOC: update 1.14 relnotes [wheel build]
• a08d1ff MAINT: stats.gstd: warn when an observation is <= 0
• a4f7119 DEP: special.perm: deprecate non-integer N and k with exact=True (#20909)
• 73339fb TST: stats: fix use of np.testing to compare xp-arrays
• 0542df6 DOC: Update 1.14.0 release notes
• f8e530c STY: _lib._util: silence mypy
• e2cbda2 TST:sparse.linalg: Skip test due to sensitivity to numerical noise
• 4fb2e6a TST: robustify test_nnls_inner_loop_case1
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Updates keras to 3.4.1

Release notes

Sourced from keras's releases.

Keras 3.4.1

This is a minor bugfix release.

Commits

• f5e90a2 Fix save_model and load_model (#19924)
• 5f52db2 Update version number
• a2e9a52 Fix compatibility of random.beta in tf.data (#19923)
• 656df40 Internally, replace FloatDTypePolicy with DTypePolicy (#19918)
• 558d38c Fix export_lib.make_tensor_spec (#19915)
• b038ce2 Avoid None shape entries in TimeDistributed
• 9cfe208 Skip TF sparse test on GPU
• f0bae91 Update version number
• 208e70d Merge branch 'master' of github.com:keras-team/keras
• c03e7b0 Skip sparse tests on GPU
• Additional commits viewable in compare view

Most Recent Ignore Conditions Applied to This Pull Request

Dependency Name	Ignore Conditions
scipy	[>= 1.13.a, < 1.14]

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[dependabot]

Looks like these dependencies are updatable in another way, so this is no longer needed.