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build(deps): update python dependencies (minor) #19

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@renovate renovate bot commented Aug 17, 2024

This PR contains the following updates:

Package Change Age Adoption Passing Confidence Type Update
black (changelog) 24.8.0 -> 24.10.0 age adoption passing confidence dev minor
keras 3.4.1 -> 3.6.0 age adoption passing confidence dependencies minor
matplotlib 3.9.1 -> 3.9.2 age adoption passing confidence dependencies patch
mypy (source, changelog) 1.11.1 -> 1.13.0 age adoption passing confidence dev minor
numpy (changelog) 2.0.1 -> 2.1.3 age adoption passing confidence dependencies minor
plotly (source, changelog) 5.23.0 -> 5.24.1 age adoption passing confidence dependencies minor
pytest (changelog) 8.3.2 -> 8.3.3 age adoption passing confidence dev patch
python >=3.10,<3.13 -> >=3.13,<3.14 age adoption passing confidence dependencies minor
ruff (source, changelog) ^0.5.0 -> ^0.7.0 age adoption passing confidence dev minor
scikit-learn (source, changelog) 1.5.1 -> 1.5.2 age adoption passing confidence dependencies patch
tqdm (changelog) 4.66.5 -> 4.67.0 age adoption passing confidence dependencies minor

Release Notes

psf/black (black)

v24.10.0

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Highlights
  • Black is now officially tested with Python 3.13 and provides Python 3.13
    mypyc-compiled wheels. (#​4436) (#​4449)
  • Black will issue an error when used with Python 3.12.5, due to an upstream memory
    safety issue in Python 3.12.5 that can cause Black's AST safety checks to fail. Please
    use Python 3.12.6 or Python 3.12.4 instead. (#​4447)
  • Black no longer supports running with Python 3.8 (#​4452)
Stable style
  • Fix crashes involving comments in parenthesised return types or X | Y style unions.
    (#​4453)
  • Fix skipping Jupyter cells with unknown %% magic (#​4462)
Preview style
  • Fix type annotation spacing between * and more complex type variable tuple (i.e. def fn(*args: *tuple[*Ts, T]) -> None: pass) (#​4440)
Caching
  • Fix bug where the cache was shared between runs with and without --unstable (#​4466)
Packaging
  • Upgrade version of mypyc used to 1.12 beta (#​4450) (#​4449)
  • blackd now requires a newer version of aiohttp. (#​4451)
Output
  • Added Python target version information on parse error (#​4378)
  • Add information about Black version to internal error messages (#​4457)
keras-team/keras (keras)

v3.6.0: Keras 3.6.0

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Highlights

  • New file editor utility: keras.saving.KerasFileEditor. Use it to inspect, diff, modify and resave Keras weights files. See basic workflow here.
  • New keras.utils.Config class for managing experiment config parameters.

BREAKING changes

  • When using keras.utils.get_file, with extract=True or untar=True, the return value will be the path of the extracted directory, rather than the path of the archive.

Other changes and additions

  • Logging is now asynchronous in fit(), evaluate(), predict(). This enables 100% compact stacking of train_step calls on accelerators (e.g. when running small models on TPU).
    • If you are using custom callbacks that rely on on_batch_end, this will disable async logging. You can force it back by adding self.async_safe = True to your callbacks. Note that the TensorBoard callback isn't considered async safe by default. Default callbacks like the progress bar are async safe.
  • Added keras.saving.KerasFileEditor utility to inspect, diff, modify and resave Keras weights file.
  • Added keras.utils.Config class. It behaves like a dictionary, with a few nice features:
    • All entries are accessible and settable as attributes, in addition to dict-style (e.g. config.foo = 2 or config["foo"] are both valid)
    • You can easily serialize it to JSON via config.to_json().
    • You can easily freeze it, preventing future changes, via config.freeze().
  • Added bitwise numpy ops:
    • bitwise_and
    • bitwise_invert
    • bitwise_left_shift
    • bitwise_not
    • bitwise_or
    • bitwise_right_shift
    • bitwise_xor
  • Added math op keras.ops.logdet.
  • Added numpy op keras.ops.trunc.
  • Added keras.ops.dot_product_attention.
  • Added keras.ops.histogram.
  • Allow infinite PyDataset instances to use multithreading.
  • Added argument verbose in keras.saving.ExportArchive.write_out() method for exporting TF SavedModel.
  • Added epsilon argument in keras.ops.normalize.
  • Added Model.get_state_tree() method for retrieving a nested dict mapping variable paths to variable values (either as numpy arrays or backend tensors (default)). This is useful for rolling out custom JAX training loops.
  • Added image augmentation/preprocessing layers keras.layers.AutoContrast, keras.layers.Solarization.
  • Added keras.layers.Pipeline class, to apply a sequence of layers to an input. This class is useful to build a preprocessing pipeline. Compared to a Sequential model, Pipeline features a few important differences:
    • It's not a Model, just a plain layer.
    • When the layers in the pipeline are compatible with tf.data, the pipeline will also remain tf.data compatible, independently of the backend you use.

New Contributors

Full Changelog: keras-team/keras@v3.5.0...v3.6.0

v3.5.0: Keras 3.5.0

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What's Changed

  • Add integration with the Hugging Face Hub. You can now save models to Hugging Face Hub directly from keras.Model.save() and load .keras models directly from Hugging Face Hub with keras.saving.load_model().
  • Ensure compatibility with NumPy 2.0.
  • Add keras.optimizers.Lamb optimizer.
  • Improve keras.distribution API support for very large models.
  • Add keras.ops.associative_scan op.
  • Add keras.ops.searchsorted op.
  • Add keras.utils.PyDataset.on_epoch_begin() method.
  • Add data_format argument to keras.layers.ZeroPadding1D layer.
  • Bug fixes and performance improvements.

Full Changelog: keras-team/keras@v3.4.1...v3.5.0

matplotlib/matplotlib (matplotlib)

v3.9.2: REL: 3.9.2

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This is the second bugfix release of the 3.9.x series.

This release contains several bug-fixes and adjustments:

  • Be more resilient to I/O failures when writing font cache
  • Fix nondeterministic behavior with subplot spacing and constrained layout
  • Fix sticky edge tolerance relative to data range
  • Improve formatting of image values in cases of singular norms

Windows wheels now bundle the MSVC runtime DLL statically to avoid inconsistencies with other wheels and random crashes depending on import order.

python/mypy (mypy)

v1.13.0

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v1.12.1

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  • Fix crash when showing partially analyzed type in error message (Ivan Levkivskyi, PR 17961)
  • Fix iteration over union (when self type is involved) (Shantanu, PR 17976)
  • Fix type object with type var default in union context (Jukka Lehtosalo, PR 17991)
  • Revert change to os.path stubs affecting use of os.PathLike[Any] (Shantanu, PR 17995)

v1.12.0

Compare Source

v1.11.2

Compare Source

numpy/numpy (numpy)

v2.1.3

Compare Source

v2.1.2

Compare Source

v2.1.1: 2.1.1 (Sep 3, 2024)

Compare Source

NumPy 2.1.1 Release Notes

NumPy 2.1.1 is a maintenance release that fixes bugs and regressions
discovered after the 2.1.0 release.

The Python versions supported by this release are 3.10-3.13.

Contributors

A total of 7 people contributed to this release. People with a "+" by
their names contributed a patch for the first time.

  • Andrew Nelson
  • Charles Harris
  • Mateusz Sokół
  • Maximilian Weigand +
  • Nathan Goldbaum
  • Pieter Eendebak
  • Sebastian Berg
Pull requests merged

A total of 10 pull requests were merged for this release.

  • #​27236: REL: Prepare for the NumPy 2.1.0 release [wheel build]
  • #​27252: MAINT: prepare 2.1.x for further development
  • #​27259: BUG: revert unintended change in the return value of set_printoptions
  • #​27266: BUG: fix reference counting bug in __array_interface__ implementation...
  • #​27267: TST: Add regression test for missing descr in array-interface
  • #​27276: BUG: Fix #​27256 and #​27257
  • #​27278: BUG: Fix array_equal for numeric and non-numeric scalar types
  • #​27287: MAINT: Update maintenance/2.1.x after the 2.0.2 release
  • #​27303: BLD: cp311- macosx_arm64 wheels [wheel build]
  • #​27304: BUG: f2py: better handle filtering of public/private subroutines
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v2.1.0

Compare Source

v2.0.2: NumPy 2.0.2 release (Aug 26, 2024)

Compare Source

NumPy 2.0.2 Release Notes

NumPy 2.0.2 is a maintenance release that fixes bugs and regressions
discovered after the 2.0.1 release.

The Python versions supported by this release are 3.9-3.12.

Contributors

A total of 13 people contributed to this release. People with a "+" by
their names contributed a patch for the first time.

  • Bruno Oliveira +
  • Charles Harris
  • Chris Sidebottom
  • Christian Heimes +
  • Christopher Sidebottom
  • Mateusz Sokół
  • Matti Picus
  • Nathan Goldbaum
  • Pieter Eendebak
  • Raghuveer Devulapalli
  • Ralf Gommers
  • Sebastian Berg
  • Yair Chuchem +
Pull requests merged

A total of 19 pull requests were merged for this release.

  • #​27000: REL: Prepare for the NumPy 2.0.1 release [wheel build]
  • #​27001: MAINT: prepare 2.0.x for further development
  • #​27021: BUG: cfuncs.py: fix crash when sys.stderr is not available
  • #​27022: DOC: Fix migration note for alltrue and sometrue
  • #​27061: BUG: use proper input and output descriptor in array_assign_subscript...
  • #​27073: BUG: Mirror VQSORT_ENABLED logic in Quicksort
  • #​27074: BUG: Bump Highway to latest master
  • #​27077: BUG: Off by one in memory overlap check
  • #​27122: BUG: Use the new npyv_loadable_stride_ functions for ldexp and...
  • #​27126: BUG: Bump Highway to latest
  • #​27128: BUG: add missing error handling in public_dtype_api.c
  • #​27129: BUG: fix another cast setup in array_assign_subscript
  • #​27130: BUG: Fix building NumPy in FIPS mode
  • #​27131: BLD: update vendored Meson for cross-compilation patches
  • #​27146: MAINT: Scipy openblas 0.3.27.44.4
  • #​27151: BUG: Do not accidentally store dtype metadata in np.save
  • #​27195: REV: Revert undef I and document it
  • #​27213: BUG: Fix NPY_RAVEL_AXIS on backwards compatible NumPy 2 builds
  • #​27279: BUG: Fix array_equal for numeric and non-numeric scalar types
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plotly/plotly.py (plotly)

v5.24.1

Compare Source

Updated
  • Updated Plotly.js from version 2.35.0 to version 2.35.2. See the plotly.js CHANGELOG for more information.

v5.24.0

Compare Source

Added
  • New px functions for maps: scatter_map, line_map, choropleth_map, and density_map.
Updated
  • Updated Plotly.js from version 2.34.0 to version 2.35.0. See the plotly.js CHANGELOG for more information. These changes are reflected in the auto-generated plotly.graph_objects module. Notable changes include:

  • Fixed a bug in integer validation of arrays that threw an error when an array contained a mix of strings and integers.

pytest-dev/pytest (pytest)

v8.3.3

Compare Source

pytest 8.3.3 (2024-09-09)

Bug fixes

  • #​12446: Avoid calling @property (and other instance descriptors) during fixture discovery -- by asottile{.interpreted-text role="user"}

  • #​12659: Fixed the issue of not displaying assertion failure differences when using the parameter --import-mode=importlib in pytest>=8.1.

  • #​12667: Fixed a regression where type change in [ExceptionInfo.errisinstance]{.title-ref} caused [mypy]{.title-ref} to fail.

  • #​12744: Fixed typing compatibility with Python 3.9 or less -- replaced [typing.Self]{.title-ref} with [typing_extensions.Self]{.title-ref} -- by Avasam{.interpreted-text role="user"}

  • #​12745: Fixed an issue with backslashes being incorrectly converted in nodeid paths on Windows, ensuring consistent path handling across environments.

  • #​6682: Fixed bug where the verbosity levels where not being respected when printing the "msg" part of failed assertion (as in assert condition, msg).

  • #​9422: Fix bug where disabling the terminal plugin via -p no:terminal would cause crashes related to missing the verbose option.

    -- by GTowers1{.interpreted-text role="user"}

Improved documentation

  • #​12663: Clarify that the [pytest_deselected]{.title-ref} hook should be called from [pytest_collection_modifyitems]{.title-ref} hook implementations when items are deselected.
  • #​12678: Remove erroneous quotes from [tmp_path_retention_policy]{.title-ref} example in docs.

Miscellaneous internal changes

  • #​12769: Fix typos discovered by codespell and add codespell to pre-commit hooks.
containerbase/python-prebuild (python)

v3.13.0

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Bug Fixes
  • deps: update dependency python to v3.13.0
astral-sh/ruff (ruff)

v0.7.2

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Preview features
  • Fix formatting of single with-item with trailing comment (#​14005)
  • [pyupgrade] Add PEP 646 Unpack conversion to * with fix (UP044) (#​13988)
Rule changes
  • Regenerate known_stdlibs.rs with stdlibs 2024.10.25 (#​13963)
  • [flake8-no-pep420] Skip namespace package enforcement for PEP 723 scripts (INP001) (#​13974)
Server
  • Fix server panic when undoing an edit (#​14010)
Bug fixes
  • Fix issues in discovering ruff in pip build environments (#​13881)
  • [flake8-type-checking] Fix false positive for singledispatchmethod (TCH003) (#​13941)
  • [flake8-type-checking] Treat return type of singledispatch as runtime-required (TCH003) (#​13957)
Documentation
  • [flake8-simplify] Include caveats of enabling if-else-block-instead-of-if-exp (SIM108) (#​14019)

v0.7.1

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Preview features
  • Fix E221 and E222 to flag missing or extra whitespace around == operator (#​13890)
  • Formatter: Alternate quotes for strings inside f-strings in preview (#​13860)
  • Formatter: Join implicit concatenated strings when they fit on a line (#​13663)
  • [pylint] Restrict iteration-over-set to only work on sets of literals (PLC0208) (#​13731)
Rule changes
  • [flake8-type-checking] Support auto-quoting when annotations contain quotes (#​11811)
Server
  • Avoid indexing the workspace for single-file mode (#​13770)
Bug fixes
  • Make ARG002 compatible with EM101 when raising NotImplementedError (#​13714)
Other changes
  • Introduce more Docker tags for Ruff (similar to uv) (#​13274)

v0.7.0

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Check out the blog post for a migration guide and overview of the changes!

Breaking changes
  • The pytest rules PT001 and PT023 now default to omitting the decorator parentheses when there are no arguments
    (#​12838, #​13292).
    This was a change that we attempted to make in Ruff v0.6.0, but only partially made due to an error on our part.
    See the blog post for more details.
  • The useless-try-except rule (in our tryceratops category) has been recoded from TRY302 to
    TRY203 (#​13502). This ensures Ruff's code is consistent with
    the same rule in the tryceratops linter.
  • The lint.allow-unused-imports setting has been removed (#​13677). Use
    lint.pyflakes.allow-unused-imports
    instead.
Formatter preview style
  • Normalize implicit concatenated f-string quotes per part (#​13539)
Preview linter features
  • [refurb] implement hardcoded-string-charset (FURB156) (#​13530)
  • [refurb] Count codepoints not bytes for slice-to-remove-prefix-or-suffix (FURB188) (#​13631)
Rule changes
  • [pylint] Mark PLE1141 fix as unsafe (#​13629)
  • [flake8-async] Consider async generators to be "checkpoints" for cancel-scope-no-checkpoint (ASYNC100) (#​13639)
  • [flake8-bugbear] Do not suggest setting parameter strict= to False in B905 diagnostic message (#​13656)
  • [flake8-todos] Only flag the word "TODO", not words starting with "todo" (TD006) (#​13640)
  • [pycodestyle] Fix whitespace-related false positives and false negatives inside type-parameter lists (E231, E251) (#​13704)
  • [flake8-simplify] Stabilize preview behavior for SIM115 so that the rule can detect files
    being opened from a wider range of standard-library functions (#​12959).
CLI
  • Add explanation of fixable in --statistics command (#​13774)
Bug fixes
  • [pyflakes] Allow ipytest cell magic (F401) (#​13745)
  • [flake8-use-pathlib] Fix PTH123 false positive when open is passed a file descriptor (#​13616)
  • [flake8-bandit] Detect patterns from multi line SQL statements (S608) (#​13574)
  • [flake8-pyi] - Fix dropped expressions in PYI030 autofix (#​13727)

v0.6.9

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Preview features
  • Fix codeblock dynamic line length calculation for indented docstring examples (#​13523)
  • [refurb] Mark FURB118 fix as unsafe (#​13613)
Rule changes
  • [pydocstyle] Don't raise D208 when last line is non-empty (#​13372)
  • [pylint] Preserve trivia (i.e. comments) in PLR5501 autofix (#​13573)
Configuration
  • [pyflakes] Add allow-unused-imports setting for unused-import rule (F401) (#​13601)
Bug fixes
  • Support ruff discovery in pip build environments (#​13591)
  • [flake8-bugbear] Avoid short circuiting B017 for multiple context managers (#​13609)
  • [pylint] Do not offer an invalid fix for PLR1716 when the comparisons contain parenthesis (#​13527)
  • [pyupgrade] Fix UP043 to apply to collections.abc.Generator and collections.abc.AsyncGenerator (#​13611)
  • [refurb] Fix handling of slices in tuples for FURB118, e.g., x[:, 1] (#​13518)
Documentation
  • Update GitHub Action link to astral-sh/ruff-action (#​13551)

[v0.6.8](h


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