cvmatrix 3.2.0__tar.gz → 3.2.2__tar.gz

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/.github/actions/test/action.yml

@@ -33,5 +33,7 @@ runs:
     # are skipped (pytest.importorskip), verifying the numpy-only path.
     - name: Run tests
       run: |
-        uv run pytest tests --doctest-modules --junitxml=junit/test-results.xml --cov=cvmatrix/ --cov-report=xml --typeguard-packages=cvmatrix/
+        # NOTE: --typeguard-packages takes the PACKAGE name "cvmatrix" (not a path); a
+        # trailing slash silently instruments nothing, disabling runtime type checks.
+        uv run pytest tests --doctest-modules --junitxml=junit/test-results.xml --cov=cvmatrix/ --cov-report=xml --typeguard-packages=cvmatrix
       shell: bash

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/.github/workflows/pull_request_test_workflow.yml

@@ -18,7 +18,7 @@ jobs:
       fail-fast: false
       matrix:
         os: [ubuntu-latest, windows-latest, macos-latest]
-        python-version: ["3.11", "3.12", "3.13", "3.14"]
+        python-version: ["3.10", "3.11", "3.12", "3.13", "3.14"]
     steps:
       - uses: actions/checkout@v4
       - uses: ./.github/actions/test
@@ -42,7 +42,7 @@ jobs:
       fail-fast: false
       matrix:
         os: [ubuntu-latest, windows-latest, macos-latest]
-        python-version: ["3.11", "3.12", "3.13", "3.14"]
+        python-version: ["3.10", "3.11", "3.12", "3.13", "3.14"]
     steps:
       - uses: actions/checkout@v4
       - uses: ./.github/actions/test

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/.github/workflows/test_workflow.yml

@@ -18,7 +18,7 @@ jobs:
             fail-fast: false
             matrix:
                 os: [ubuntu-latest, windows-latest, macos-latest]
-                python-version: ["3.11", "3.12", "3.13", "3.14"]
+                python-version: ["3.10", "3.11", "3.12", "3.13", "3.14"]
         steps:
             - uses: actions/checkout@v4
             - uses: ./.github/actions/test
@@ -42,7 +42,7 @@ jobs:
             fail-fast: false
             matrix:
                 os: [ubuntu-latest, windows-latest, macos-latest]
-                python-version: ["3.11", "3.12", "3.13", "3.14"]
+                python-version: ["3.10", "3.11", "3.12", "3.13", "3.14"]
         steps:
             - uses: actions/checkout@v4
             - uses: ./.github/actions/test

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/CHANGELOG.md

@@ -5,6 +5,20 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## [3.2.2] - 2026-07-06
+
+### Changed
+- Lowered the minimum supported Python version from 3.11 to 3.10 (`requires-python = ">=3.10, <3.15"`). The code base uses no Python-3.11-only features; this broadens compatibility for downstream packages that still support Python 3.10. Python 3.10 is now included in the CI test matrices. No functional changes.
+
+### Fixed
+- The fold-index parameters (`validation_indices` / `val_indices`) are now annotated with a new `IndexArray` alias that `_enable_jax_typing()` broadens to admit `jax.Array`, matching the `Array`/`Scalar` aliases introduced in 3.2.1. Previously they were annotated as `npt.NDArray[np.int_]` only, so running the test suite with `typeguard` instrumentation enabled failed on the `jax.jit`/`jax.vmap` trace tests (the indices are abstract tracers under tracing). Runtime behavior is unchanged; this only affects runtime type checking.
+- CI now actually enables `typeguard` instrumentation during tests: the test command passed `--typeguard-packages=cvmatrix/` (a path, with a trailing slash) instead of the package name `cvmatrix`, which silently instrumented nothing and masked the annotation issue above.
+
+## [3.2.1] - 2026-07-01
+
+### Changed
+- `import cvmatrix` no longer imports JAX, even when JAX is installed. JAX was previously imported at module load time to broaden the array/scalar type hints so that `backend="jax"` values satisfy runtime type checking; it is now imported lazily, only when the JAX backend is actually resolved (`backend="jax"`). The array/scalar type aliases start NumPy-only and are broadened in-place to also admit `jax.Array` the first time the JAX backend is used (annotations are deferred via `from __future__ import annotations`, so `typeguard` resolves them against the broadened aliases at call time). This keeps NumPy-only import paths — and downstream packages that use only the NumPy backend — free of the JAX import cost. The `numpy` and `jax` backends are behavior- and result-identical to 3.2.0.
+
 ## [3.2.0] - 2026-06-29
 
 ### Added

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: cvmatrix
-Version: 3.2.0
+Version: 3.2.2
 Summary: Fast computation of possibly weighted and possibly centered/scaled training set kernel matrices in a cross-validation setting.
 Project-URL: Homepage, https://cvmatrix.readthedocs.io/en/latest/
 Project-URL: Repository, https://github.com/Sm00thix/CVMatrix
@@ -8,11 +8,12 @@ Author-email: Sm00thix <oleemail@icloud.com>
 Maintainer-email: Sm00thix <oleemail@icloud.com>
 License-Expression: Apache-2.0
 License-File: LICENSE
+Classifier: Programming Language :: Python :: 3.10
 Classifier: Programming Language :: Python :: 3.11
 Classifier: Programming Language :: Python :: 3.12
 Classifier: Programming Language :: Python :: 3.13
 Classifier: Programming Language :: Python :: 3.14
-Requires-Python: <3.15,>=3.11
+Requires-Python: <3.15,>=3.10
 Requires-Dist: numpy<3.0.0,>=2.0.0
 Provides-Extra: jax
 Requires-Dist: jax>=0.4.0; extra == 'jax'
@@ -32,6 +33,8 @@ Description-Content-Type: text/markdown
 
 [![Documentation Status](https://readthedocs.org/projects/cvmatrix/badge/?version=latest)](https://cvmatrix.readthedocs.io/en/latest/?badge=latest)
 
+[![CodeFactor](https://www.codefactor.io/repository/github/sm00thix/cvmatrix/badge/main)](https://www.codefactor.io/repository/github/sm00thix/cvmatrix/overview/main)
+
 [![Tests Status](https://github.com/Sm00thix/CVMatrix/actions/workflows/test_workflow.yml/badge.svg)](https://github.com/Sm00thix/CVMatrix/actions/workflows/test_workflow.yml)
 
 [![Test Coverage](https://coveralls.io/repos/github/sm00thix/cvmatrix/badge.svg?branch=main)](https://coveralls.io/github/sm00thix/cvmatrix?branch=main)

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/README.md

@@ -12,6 +12,8 @@
 
 [![Documentation Status](https://readthedocs.org/projects/cvmatrix/badge/?version=latest)](https://cvmatrix.readthedocs.io/en/latest/?badge=latest)
 
+[![CodeFactor](https://www.codefactor.io/repository/github/sm00thix/cvmatrix/badge/main)](https://www.codefactor.io/repository/github/sm00thix/cvmatrix/overview/main)
+
 [![Tests Status](https://github.com/Sm00thix/CVMatrix/actions/workflows/test_workflow.yml/badge.svg)](https://github.com/Sm00thix/CVMatrix/actions/workflows/test_workflow.yml)
 
 [![Test Coverage](https://coveralls.io/repos/github/sm00thix/cvmatrix/badge.svg?branch=main)](https://coveralls.io/github/sm00thix/cvmatrix?branch=main)

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/cvmatrix/__init__.py

@@ -1,4 +1,4 @@
-__version__ = "3.2.0"
+__version__ = "3.2.2"
 __all__ = ["CVMatrix", "Partitioner"]
 from .cvmatrix import CVMatrix
 from .partitioner import Partitioner

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/cvmatrix/cvmatrix.py

@@ -10,45 +10,53 @@ Author: Ole-Christian Galbo Engstrøm
 E-mail: ocge@foss.dk
 """
 
-from typing import TYPE_CHECKING, Literal, Optional, Tuple, Union
+from __future__ import annotations
+
+from typing import Literal, Optional, Tuple, Union
 
 import numpy as np
 from numpy import typing as npt
 
-try:
-    # Broaden the array/scalar type hints so that, with backend="jax", jax.numpy values
-    # (which are jax.Array instances, including under jit/vmap tracing) satisfy runtime
-    # type checking. numpy remains the only required dependency; this is skipped if jax
-    # is not installed, leaving the hints numpy-only.
-    import jax as _jax
-
-    Array = Union[np.ndarray, _jax.Array]
-    Scalar = Union[np.floating, _jax.Array, float, int]
-    # float dtype types accepted by `dtype`: numpy float types (`type[np.floating]`) and
-    # JAX scalar dtypes. The latter (e.g. jnp.float64/float32/bfloat16) are instances of
-    # JAX's scalar-type metaclass -- NOT numpy.floating subclasses -- so they must be
-    # admitted via that metaclass.
-    _JaxScalarMeta = type(_jax.numpy.float64)
-    FloatDType = Union[type[np.floating], _JaxScalarMeta]
-    # Abstract values produced while a function is traced by jax.jit/jax.vmap. Used to
-    # skip data-dependent validity raises that cannot run under tracing (the host-side
-    # caller is expected to validate folds before vmap); eager (concrete) jax values are
-    # NOT tracers, so they still validate like the numpy backend.
-    _TRACER_TYPES: tuple = (_jax.core.Tracer,)
-except ImportError:  # pragma: no cover - exercised only without jax
-    Array = np.ndarray
-    Scalar = Union[np.floating, float, int]
-    FloatDType = type[np.floating]
-    _TRACER_TYPES = ()
-
-if TYPE_CHECKING:
-    # JAX's scalar-dtype metaclass (`type(jnp.float64)`) has no public *static* type, so
-    # the precise runtime `FloatDType` union above is built from a value (`_JaxScalarMeta`)
-    # that static type checkers reject in a type expression ("variables are not allowed in
-    # type expressions"). For static analysis only, expose numpy's standard dtype-specifier
-    # alias, which cleanly accepts both numpy float types and JAX scalar dtypes. At run
-    # time `TYPE_CHECKING` is False, so typeguard still validates against the precise union.
-    FloatDType = npt.DTypeLike
+# Array/scalar type aliases. NumPy is the only required dependency, so JAX is NEVER
+# imported at module load -- ``import cvmatrix`` stays JAX-free even when JAX is
+# installed. The aliases are numpy-only by default and are broadened in-place to
+# also admit ``jax.Array`` values by ``_enable_jax_typing()``, which runs the first
+# time the JAX backend is resolved. Because ``from __future__ import annotations``
+# keeps annotations as strings, typeguard resolves them against the *current* module
+# globals at call time, so the broadened unions take effect once JAX is in use.
+Array = np.ndarray
+Scalar = Union[np.floating, float, int]
+# Integer index arrays (fold validation indices). Under jax.jit/jax.vmap these are
+# abstract tracers, so the alias is broadened alongside ``Array``/``Scalar``.
+IndexArray = npt.NDArray[np.int_]
+# ``dtype`` specifier: ``npt.DTypeLike`` cleanly admits both numpy float types and
+# JAX scalar dtypes (e.g. ``jnp.float64``) without importing JAX.
+FloatDType = npt.DTypeLike
+# Abstract values produced while a function is traced by jax.jit/jax.vmap. Used to
+# skip data-dependent validity raises that cannot run under tracing (the host-side
+# caller is expected to validate folds before vmap). Empty until the JAX backend is
+# used, so the numpy backend's isinstance checks are always False (numpy values are
+# never tracers); eager (concrete) jax values are NOT tracers, so they still
+# validate like the numpy backend.
+_TRACER_TYPES: tuple = ()
+
+
+def _enable_jax_typing() -> None:
+    """Broaden the array/scalar aliases and tracer types to admit JAX values.
+
+    Called (idempotently) when the JAX backend is resolved. Kept out of module
+    import so that ``import cvmatrix`` never imports JAX. Because
+    ``from __future__ import annotations`` keeps annotations as strings, typeguard
+    resolves annotations against these (now broadened) module globals at call time,
+    so ``jax.Array`` values pass the runtime type checks once JAX is in use.
+    """
+    import jax
+
+    global Array, Scalar, IndexArray, _TRACER_TYPES
+    Array = Union[np.ndarray, jax.Array]
+    Scalar = Union[np.floating, jax.Array, float, int]
+    IndexArray = Union[npt.NDArray[np.int_], jax.Array]
+    _TRACER_TYPES = (jax.core.Tracer,)
 
 
 def _resolve_backend(backend: str):
@@ -85,6 +93,9 @@ def _resolve_backend(backend: str):
                 "backend='jax' requires the optional JAX dependency. Install it with "
                 "`pip install cvmatrix[jax]`."
             ) from e
+        # Broaden the array/scalar type aliases to admit jax.Array now that JAX is
+        # in use (kept out of module import so importing cvmatrix stays JAX-free).
+        _enable_jax_typing()
         return jnp
     raise ValueError(f"Invalid backend: {backend!r}. Must be 'numpy' or 'jax'.")
 
@@ -321,10 +332,8 @@ class CVMatrix:
         self._init_stats()
 
     def training_XTX(
-        self, validation_indices: npt.NDArray[np.int_]
-    ) -> Tuple[
-        Array, Tuple[Optional[Array], Optional[Array], None, None]
-    ]:
+        self, validation_indices: IndexArray
+    ) -> Tuple[Array, Tuple[Optional[Array], Optional[Array], None, None]]:
         r"""
         Computes the training set :math:`\mathbf{X}^{\mathbf{T}}\mathbf{W}\mathbf{X}`
         corresponding to every sample except those at the `validation_indices`. Also
@@ -333,7 +342,7 @@ class CVMatrix:
 
         Parameters
         ----------
-        validation_indices : npt.NDArray[np.int_]
+        validation_indices : IndexArray
             An integer array of indices for the validation set for which to
             return the corresponding training set
             :math:`\mathbf{X}^{\mathbf{T}}\mathbf{W}\mathbf{X}`. The validation indices
@@ -376,7 +385,7 @@ class CVMatrix:
         return self._training_matrices(True, False, validation_indices)
 
     def training_XTY(
-        self, validation_indices: npt.NDArray[np.int_]
+        self, validation_indices: IndexArray
     ) -> Tuple[
         Array,
         Tuple[
@@ -396,7 +405,7 @@ class CVMatrix:
 
         Parameters
         ----------
-        validation_indices : npt.NDArray[np.int_]
+        validation_indices : IndexArray
             An integer array of indices for the validation set for which to
             return the corresponding training set
             :math:`\mathbf{X}^{\mathbf{T}}\mathbf{W}\mathbf{Y}`. The validation indices
@@ -442,7 +451,7 @@ class CVMatrix:
         return self._training_matrices(False, True, validation_indices)
 
     def training_XTX_XTY(
-        self, validation_indices: npt.NDArray[np.int_]
+        self, validation_indices: IndexArray
     ) -> Tuple[
         Tuple[Array, Array],
         Tuple[
@@ -464,7 +473,7 @@ class CVMatrix:
 
         Parameters
         ----------
-        validation_indices : npt.NDArray[np.int_]
+        validation_indices : IndexArray
             An integer array of indices for the validation set for which to
             return the corresponding training set
             :math:`\mathbf{X}^{\mathbf{T}}\mathbf{W}\mathbf{X}` and
@@ -510,7 +519,7 @@ class CVMatrix:
         return self._training_matrices(True, True, validation_indices)
 
     def training_statistics(
-        self, validation_indices: npt.NDArray[np.int_]
+        self, validation_indices: IndexArray
     ) -> Tuple[
         Optional[Array],
         Optional[Array],
@@ -580,7 +589,7 @@ class CVMatrix:
         return x
 
     def _get_sum_w_train_and_num_nonzero_w_train(
-        self, val_indices: npt.NDArray[np.int_]
+        self, val_indices: IndexArray
     ) -> Tuple[Scalar, Scalar]:
         """
         Returns a tuple containing the sum of weights in the training set and the number
@@ -624,7 +633,7 @@ class CVMatrix:
 
     def _compute_training_stats(
         self,
-        val_indices: npt.NDArray[np.int_],
+        val_indices: IndexArray,
         X_val: Optional[Array],
         Y_val: Optional[Array],
         return_X_mean: bool,
@@ -745,7 +754,7 @@ class CVMatrix:
         )
 
     def _training_matrices(
-        self, return_XTX: bool, return_XTY: bool, val_indices: npt.NDArray[np.int_]
+        self, return_XTX: bool, return_XTY: bool, val_indices: IndexArray
     ) -> Tuple[
         Union[Array, Tuple[Array, Array]],
         Tuple[
@@ -770,7 +779,7 @@ class CVMatrix:
             Whether to return the training set
             :math:`\mathbf{X}^{\mathbf{T}}\mathbf{W}\mathbf{Y}`.
 
-        validation_indices : npt.NDArray[np.int_]
+        validation_indices : IndexArray
             An integer array of indices for the validation set for which to
             return the corresponding training set
             :math:`\mathbf{X}^{\mathbf{T}}\mathbf{W}\mathbf{X}` and
@@ -889,7 +898,7 @@ class CVMatrix:
         )
 
     def _get_val_matrices(
-        self, val_indices: npt.NDArray[np.int_], return_XTY: bool
+        self, val_indices: IndexArray, return_XTY: bool
     ) -> Tuple[
         Array,
         Array,

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/pyproject.toml

@@ -1,13 +1,14 @@
 [project]
 name = "cvmatrix"
-version = "3.2.0"
+version = "3.2.2"
 description = "Fast computation of possibly weighted and possibly centered/scaled training set kernel matrices in a cross-validation setting."
 authors = [{ name = "Sm00thix", email = "oleemail@icloud.com" }]
 maintainers = [{ name = "Sm00thix", email = "oleemail@icloud.com" }]
 license = "Apache-2.0"
 readme = "README.md"
-requires-python = ">=3.11, <3.15"
+requires-python = ">=3.10, <3.15"
 classifiers = [
+    "Programming Language :: Python :: 3.10",
     "Programming Language :: Python :: 3.11",
     "Programming Language :: Python :: 3.12",
     "Programming Language :: Python :: 3.13",

{cvmatrix-3.2.0 → cvmatrix-3.2.2}/uv.lock

@@ -1,6 +1,6 @@
 version = 1
 revision = 3
-requires-python = ">=3.11, <3.15"
+requires-python = ">=3.10, <3.15"
 resolution-markers = [
     "python_full_version >= '3.14' and sys_platform == 'win32'",
     "python_full_version >= '3.14' and sys_platform == 'emscripten'",
@@ -11,9 +11,10 @@ resolution-markers = [
     "python_full_version == '3.12.*' and sys_platform == 'emscripten'",
     "python_full_version == '3.13.*' and sys_platform != 'emscripten' and sys_platform != 'win32'",
     "python_full_version == '3.12.*' and sys_platform != 'emscripten' and sys_platform != 'win32'",
-    "python_full_version < '3.12' and sys_platform == 'win32'",
-    "python_full_version < '3.12' and sys_platform == 'emscripten'",
-    "python_full_version < '3.12' and sys_platform != 'emscripten' and sys_platform != 'win32'",
+    "python_full_version == '3.11.*' and sys_platform == 'win32'",
+    "python_full_version == '3.11.*' and sys_platform == 'emscripten'",
+    "python_full_version == '3.11.*' and sys_platform != 'emscripten' and sys_platform != 'win32'",
+    "python_full_version < '3.11'",
 ]
 
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+    { url = "https://files.pythonhosted.org/packages/33/eb/f7aa3cb46500b709070c8d12335446971ec8b8c2ea155fea05d2000b4b1f/coverage-7.14.3-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:ed68faa5e85de2f3e400bc3f122e5c82735a58c8bb24b9f63a2215954ba17b2d", size = 220895, upload-time = "2026-06-22T23:07:41.536Z" },
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     { name = "pytest" },
     { name = "pytest-cov" },
     { name = "ruff" },
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