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Bump the runtime-dependencies group across 1 directory with 5 updates #1579

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@dependabot dependabot bot commented on behalf of github Feb 21, 2025

Bumps the runtime-dependencies group with 5 updates in the / directory:

Package From To
asteval 1.0.5 1.0.6
numba 0.60.0 0.61.0
numpy 2.0.2 2.2.3
ruamel-yaml 0.18.6 0.18.10
scipy 1.14.1 1.15.2

Updates asteval from 1.0.5 to 1.0.6

Release notes

Sourced from asteval's releases.

1.0.6

  • drop testing and support for Python3.8, add Python 3.13, change document to reflect this.
  • implement safe_getattr and safe_format functions; fix bugs in UNSAFE_ATTRS and UNSAFE_ATTRS_DTYPES usage
  • make all procedure attributes private to curb access to AST nodes, which can be exploited
  • improvements to error messages, including use ast functions to construct better error messages
  • remove import of numpy.linalg, as documented
  • update doc description for security advisory

Special thanks to @​SteakEnthusiast for the security-related fixes

Commits
  • 40c3196 document support for Python 3.9 to 3.13
  • 70eb46b using ast functions to construct better error messages
  • b578ce1 work on improving error messages
  • 9dbd8ad update supported version
  • ea78397 update copyright
  • 36abc02 change tested versions to 3.9 to 3.13
  • 68a43a1 drop Python3.8 testing
  • 8e0700e include text and better lineno info for better exceptions
  • 6970d89 some doc updates
  • 5840a7f fix doc Makefile
  • Additional commits viewable in compare view

Updates numba from 0.60.0 to 0.61.0

Release notes

Sourced from numba's releases.

Numba 0.61.0

Major Numba release adding Python 3.13 and NumPy 2.1 support. View detailed release notes and changelog here.

Commits
  • 8ec16ce Merge pull request #9897 from kc611/release0.61
  • a9ee23a Fixed NumPy versioning issue in RTD
  • 01e0bcd Updated version support table
  • 0ae7143 Modified changelog for 0.61.0 final
  • 7d23618 Merge pull request #9887 from sklam/misc/disable_coverage
  • 0d7b433 Merge pull request #9843 from kc611/release0.61
  • 3735191 Update docs/source/release/0.61.0-notes.rst
  • 1bd3d0f Updated changelog entries
  • d74d94e Merge pull request #9848 from sklam/fix/py3_13_1_getiter
  • bf20b30 Added Changlog entries for RC2
  • Additional commits viewable in compare view

Updates numpy from 2.0.2 to 2.2.3

Release notes

Sourced from numpy's releases.

2.2.3 (Feb 13, 2025)

NumPy 2.2.3 Release Notes

NumPy 2.2.3 is a patch release that fixes bugs found after the 2.2.2 release. The majority of the changes are typing improvements and fixes for free threaded Python. Both of those areas are still under development, so if you discover new problems, please report them.

This release supports Python versions 3.10-3.13.

Contributors

A total of 9 people contributed to this release. People with a "+" by their names contributed a patch for the first time.

  • !amotzop
  • Charles Harris
  • Chris Sidebottom
  • Joren Hammudoglu
  • Matthew Brett
  • Nathan Goldbaum
  • Raghuveer Devulapalli
  • Sebastian Berg
  • Yakov Danishevsky +

Pull requests merged

A total of 21 pull requests were merged for this release.

  • #28185: MAINT: Prepare 2.2.x for further development
  • #28201: BUG: fix data race in a more minimal way on stable branch
  • #28208: BUG: Fix from_float_positional errors for huge pads
  • #28209: BUG: fix data race in np.repeat
  • #28212: MAINT: Use VQSORT_COMPILER_COMPATIBLE to determine if we should...
  • #28224: MAINT: update highway to latest
  • #28236: BUG: Add cpp atomic support (#28234)
  • #28237: BLD: Compile fix for clang-cl on WoA
  • #28243: TYP: Avoid upcasting float64 in the set-ops
  • #28249: BLD: better fix for clang / ARM compiles
  • #28266: TYP: Fix timedelta64.__divmod__ and timedelta64.__mod__...
  • #28274: TYP: Fixed missing typing information of set_printoptions
  • #28278: BUG: backport resource cleanup bugfix from gh-28273
  • #28282: BUG: fix incorrect bytes to stringdtype coercion
  • #28283: TYP: Fix scalar constructors
  • #28284: TYP: stub numpy.matlib
  • #28285: TYP: stub the missing numpy.testing modules
  • #28286: CI: Fix the github label for TYP: PR's and issues
  • #28305: TYP: Backport typing updates from main
  • #28321: BUG: fix race initializing legacy dtype casts
  • #28324: CI: update test_moderately_small_alpha

... (truncated)

Changelog

Sourced from numpy's changelog.

This is a walkthrough of the NumPy 2.1.0 release on Linux, modified for building with GitHub Actions and cibuildwheels and uploading to the anaconda.org staging repository for NumPy <https://anaconda.org/multibuild-wheels-staging/numpy>_. The commands can be copied into the command line, but be sure to replace 2.1.0 by the correct version. This should be read together with the :ref:general release guide <prepare_release>.

Facility preparation

Before beginning to make a release, use the requirements/*_requirements.txt files to ensure that you have the needed software. Most software can be installed with pip, but some will require apt-get, dnf, or whatever your system uses for software. You will also need a GitHub personal access token (PAT) to push the documentation. There are a few ways to streamline things:

  • Git can be set up to use a keyring to store your GitHub personal access token. Search online for the details.
  • You can use the keyring app to store the PyPI password for twine. See the online twine documentation for details.

Prior to release

Add/drop Python versions

When adding or dropping Python versions, three files need to be edited:

  • .github/workflows/wheels.yml # for github cibuildwheel
  • tools/ci/cirrus_wheels.yml # for cibuildwheel aarch64/arm64 builds
  • pyproject.toml # for classifier and minimum version check.

Make these changes in an ordinary PR against main and backport if necessary. Add [wheel build] at the end of the title line of the commit summary so that wheel builds will be run to test the changes. We currently release wheels for new Python versions after the first Python rc once manylinux and cibuildwheel support it. For Python 3.11 we were able to release within a week of the rc1 announcement.

Backport pull requests

Changes that have been marked for this release must be backported to the maintenance/2.1.x branch.

Update 2.1.0 milestones

... (truncated)

Commits
  • a274561 Merge pull request #28322 from charris/prepare-2.2.3
  • 5ab0f71 REL: Prepare for the NumPy 2.2.3 release [wheel build]
  • 010ad9b Merge pull request #28324 from charris/update-test_dirichlet_moderately_small...
  • 6338746 CI: update test_moderately_small_alpha [wheel build]
  • 56f8d5b Merge pull request #28321 from charris/backport-28290
  • 48515a3 MAINT: Update some testing files from main
  • 96ca7e3 MAINT: respond to code review
  • c20ac88 MAINT: use a try/finally to make the deadlock protection more robust
  • d494647 MAINT: fix indentation and clarify comment
  • 3f8fbd6 MAINT: go back to try/except
  • Additional commits viewable in compare view

Updates ruamel-yaml from 0.18.6 to 0.18.10

Updates scipy from 1.14.1 to 1.15.2

Release notes

Sourced from scipy's releases.

SciPy 1.15.2 Release Notes

SciPy 1.15.2 is a bug-fix release with no new features compared to 1.15.1. Free-threaded Python 3.13 wheels for Linux ARM platform are available on PyPI starting with this release.

Authors

  • Name (commits)
  • Peter Bell (1)
  • Charles Bousseau (1) +
  • Jake Bowhay (3)
  • Matthew Brett (1)
  • Ralf Gommers (3)
  • Rohit Goswami (1)
  • Matt Haberland (4)
  • Parth Nobel (1) +
  • Tyler Reddy (33)
  • Daniel Schmitz (2)
  • Dan Schult (5)
  • Scott Shambaugh (2)
  • Edgar Andrés Margffoy Tuay (1)
  • Warren Weckesser (4)

A total of 14 people contributed to this release. People with a "+" by their names contributed a patch for the first time. This list of names is automatically generated, and may not be fully complete.

SciPy 1.15.1 Release Notes

SciPy 1.15.1 is a bug-fix release with no new features compared to 1.15.0. Importantly, an issue with the import of scipy.optimize breaking other packages has been fixed.

Authors

  • Name (commits)
  • Ralf Gommers (3)
  • Rohit Goswami (1)
  • Matt Haberland (2)
  • Tyler Reddy (7)
  • Daniel Schmitz (1)

... (truncated)

Commits
  • 0f1fd4a REL: 1.15.2 rel commit [wheel build]
  • 7df5cc6 Merge pull request #22471 from tylerjereddy/treddy_backports_1.15.2
  • a046fa0 CI: PR 22471 wheel builds [wheel build]
  • 198aa52 DOC: PR 22471 revisions
  • ba61a58 CI: PR 22471 revisions
  • e0251ee do not check dtype in test_compare_with_GCVSPL
  • fcc68dd MAINT: integrate.cumulative_simpson: bump test tolerance
  • 6d2c059 BUG: wrap median_filter stability (#22402)
  • 59cb7d4 DOC: PR 22471 revisions
  • a60d17f MAINT: pearsonr SIMD-related shim
  • Additional commits viewable in compare view

Most Recent Ignore Conditions Applied to This Pull Request
Dependency Name Ignore Conditions
numpy [>= 1.25.a, < 1.26]

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Summary by Sourcery

Enhancements:

  • Update the upper bound of the numpy dependency to <2.3.

Bumps the runtime-dependencies group with 5 updates in the / directory:

| Package | From | To |
| --- | --- | --- |
| [asteval](/~https://github.com/lmfit/asteval) | `1.0.5` | `1.0.6` |
| [numba](/~https://github.com/numba/numba) | `0.60.0` | `0.61.0` |
| [numpy](/~https://github.com/numpy/numpy) | `2.0.2` | `2.2.3` |
| ruamel-yaml | `0.18.6` | `0.18.10` |
| [scipy](/~https://github.com/scipy/scipy) | `1.14.1` | `1.15.2` |



Updates `asteval` from 1.0.5 to 1.0.6
- [Release notes](/~https://github.com/lmfit/asteval/releases)
- [Commits](lmfit/asteval@1.0.5...1.0.6)

Updates `numba` from 0.60.0 to 0.61.0
- [Release notes](/~https://github.com/numba/numba/releases)
- [Commits](numba/numba@0.60.0...0.61.0)

Updates `numpy` from 2.0.2 to 2.2.3
- [Release notes](/~https://github.com/numpy/numpy/releases)
- [Changelog](/~https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](numpy/numpy@v2.0.2...v2.2.3)

Updates `ruamel-yaml` from 0.18.6 to 0.18.10

Updates `scipy` from 1.14.1 to 1.15.2
- [Release notes](/~https://github.com/scipy/scipy/releases)
- [Commits](scipy/scipy@v1.14.1...v1.15.2)

---
updated-dependencies:
- dependency-name: asteval
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: runtime-dependencies
- dependency-name: numba
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: runtime-dependencies
- dependency-name: numpy
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: runtime-dependencies
- dependency-name: ruamel-yaml
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: runtime-dependencies
- dependency-name: scipy
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: runtime-dependencies
...

Signed-off-by: dependabot[bot] <support@github.com>
@dependabot dependabot bot requested review from a team as code owners February 21, 2025 19:07
@dependabot dependabot bot added dependencies Pull requests that update a dependency file python Pull requests that update Python code labels Feb 21, 2025
@dependabot dependabot bot requested review from jsnel and s-weigand February 21, 2025 19:07
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sourcery-ai bot commented Feb 21, 2025

Reviewer's Guide by Sourcery

This pull request updates the runtime dependencies, including asteval, numba, numpy, ruamel-yaml, and scipy. It also adjusts the numpy version constraint in setup.cfg.

Updated class diagram for numpy

classDiagram
    class numpy {
        +__version__: str
        +ndarray
        +array()
        +zeros()
        +ones()
        +random
        +linalg
        +fft
        +...
    }
    note for numpy "Updated from 2.0.2 to 2.2.3"
Loading

File-Level Changes

Change Details Files
Update the version constraint for the numpy dependency.
  • Update the upper bound of the numpy version from <2.1 to <2.3.
setup.cfg
Bump the versions of runtime dependencies.
  • Update asteval from 1.0.5 to 1.0.6
  • Update numba from 0.60.0 to 0.61.0
  • Update numpy from 2.0.2 to 2.2.3
  • Update ruamel-yaml from 0.18.6 to 0.18.10
  • Update scipy from 1.14.1 to 1.15.2
setup.cfg

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