diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index a7f7f2a..198376c 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -4,10 +4,10 @@ repos: hooks: - id: check-hooks-apply - id: check-useless-excludes - - repo: https://github.com/tox-dev/tox-toml-fmt - rev: v1.2.2 + - repo: https://github.com/tox-dev/pyproject-fmt + rev: v2.12.1 hooks: - - id: tox-toml-fmt + - id: pyproject-fmt - repo: https://github.com/lyz-code/yamlfix rev: 1.19.1 hooks: @@ -47,7 +47,7 @@ repos: hooks: - id: yamllint - repo: https://github.com/astral-sh/ruff-pre-commit - rev: v0.14.11 + rev: v0.15.0 hooks: - id: ruff-check args: @@ -61,12 +61,20 @@ repos: - jupyter - pyi - python + - repo: https://github.com/kynan/nbstripout + rev: 0.8.2 + hooks: + - id: nbstripout + args: + - --extra-keys + - metadata.kernelspec metadata.language_info.version metadata.vscode - repo: https://github.com/executablebooks/mdformat rev: 1.0.0 hooks: - id: mdformat additional_dependencies: - mdformat-gfm + - mdformat-gfm-alerts - mdformat-ruff args: - --wrap diff --git a/CHANGES.md b/CHANGES.md index e69b85b..c44b37c 100644 --- a/CHANGES.md +++ b/CHANGES.md @@ -6,6 +6,8 @@ releases are available on [conda-forge](https://anaconda.org/conda-forge/dags). ## 0.5.0 +- :gh:`71` Change `list` annotations to `Sequence` (:ghuser:`hmgaudecker`). + - :gh:`67` Change `dict` annotations to `Mapping`; do not require string annotations from users (:ghuser:`hmgaudecker`). diff --git a/docs/source/example/example.ipynb b/docs/source/example/example.ipynb index 173f873..7a123f9 100644 --- a/docs/source/example/example.ipynb +++ b/docs/source/example/example.ipynb @@ -2,7 +2,7 @@ "cells": [ { "cell_type": "code", - "execution_count": 1, + "execution_count": null, "metadata": {}, "outputs": [], "source": [ @@ -11,7 +11,7 @@ }, { "cell_type": "code", - "execution_count": 2, + "execution_count": null, "metadata": {}, "outputs": [], "source": [ @@ -26,20 +26,9 @@ }, { "cell_type": "code", - "execution_count": 3, + "execution_count": null, "metadata": {}, - "outputs": [ - { - "data": { - "text/plain": [ - "{'linear': {'x': 'float'}, 'parabolic': {'x': 'float'}}" - ] - }, - "execution_count": 3, - "metadata": {}, - "output_type": "execute_result" - } - ], + "outputs": [], "source": [ "inputs = dt.create_tree_with_input_types(functions=functions)\n", "inputs" @@ -47,7 +36,7 @@ }, { "cell_type": "code", - "execution_count": 4, + "execution_count": null, "metadata": {}, "outputs": [], "source": [ @@ -60,20 +49,9 @@ }, { "cell_type": "code", - "execution_count": 5, + "execution_count": null, "metadata": {}, - "outputs": [ - { - "data": { - "text/plain": [ - "{'parabolic': {'h': 20.25}}" - ] - }, - "execution_count": 5, - "metadata": {}, - "output_type": "execute_result" - } - ], + "outputs": [], "source": [ "combined(\n", " inputs={\n", @@ -85,20 +63,9 @@ }, { "cell_type": "code", - "execution_count": 6, + "execution_count": null, "metadata": {}, - "outputs": [ - { - "data": { - "text/plain": [ - "{'parabolic': {'h': 110.25}}" - ] - }, - "execution_count": 6, - "metadata": {}, - "output_type": "execute_result" - } - ], + "outputs": [], "source": [ "combined_top_level = dt.concatenate_functions_tree(\n", " functions=functions,\n", @@ -117,11 +84,6 @@ } ], "metadata": { - "kernelspec": { - "display_name": "py310", - "language": "python", - "name": "python3" - }, "language_info": { "codemirror_mode": { "name": "ipython", @@ -131,8 +93,7 @@ "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.13.5" + "pygments_lexer": "ipython3" } }, "nbformat": 4, diff --git a/pixi.lock b/pixi.lock index a856a63..6e8bc10 100644 --- a/pixi.lock +++ b/pixi.lock @@ -31,20 +31,14 @@ environments: - conda: https://conda.anaconda.org/conda-forge/noarch/cached_property-1.5.2-pyha770c72_1.tar.bz2 - conda: https://conda.anaconda.org/conda-forge/noarch/certifi-2026.1.4-pyhd8ed1ab_0.conda - conda: https://conda.anaconda.org/conda-forge/linux-64/cffi-2.0.0-py314h4a8dc5f_1.conda - - conda: https://conda.anaconda.org/conda-forge/noarch/cfgv-3.5.0-pyhd8ed1ab_0.conda - 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"flatten-dict", +readme = { file = "README.md", content-type = "text/markdown" } +keywords = [ ] +license = { file = "LICENSE" } +maintainers = [ + { name = "Hans-Martin von Gaudecker", email = "hmgaudecker@uni-bonn.de" }, +] +authors = [ + { name = "Janoś Gabler", email = "janos.gabler@gmail.com" }, + { name = "Tobias Raabe" }, ] +requires-python = ">=3.11" classifiers = [ "Development Status :: 3 - Alpha", + "Intended Audience :: Science/Research", "License :: OSI Approved :: MIT License", "Operating System :: MacOS :: MacOS X", "Operating System :: Microsoft :: Windows", "Operating System :: POSIX", - "Operating System :: Unix", - "Programming Language :: Python :: 3", "Programming Language :: Python :: 3 :: Only", + "Programming Language :: Python :: 3.11", + "Programming Language :: Python :: 3.12", + "Programming Language :: Python :: 3.13", + "Programming Language :: Python :: 3.14", "Topic :: Utilities", "Typing :: Typed", ] -authors = [ - { name = "Janoś Gabler", email = "janos.gabler@gmail.com" }, - { name = "Tobias Raabe" }, -] -maintainers = [ - { name = "Hans-Martin von Gaudecker", email = "hmgaudecker@uni-bonn.de" }, +dynamic = [ "version" ] +dependencies = [ + "flatten-dict", + "networkx>=3.6", ] -[project.readme] -file = "README.md" -content-type = "text/markdown" - -[project.license] -file = "LICENSE" - -[project.urls] -Repository = "https://github.com/OpenSourceEconomics/dags" -Github = "https://github.com/OpenSourceEconomics/dags" -Tracker = "https://github.com/OpenSourceEconomics/dags/issues" - -# ====================================================================================== -# Build system configuration -# ====================================================================================== - -[build-system] -requires = [ "hatchling", "hatch_vcs" ] -build-backend = "hatchling.build" +urls.Github = "https://github.com/OpenSourceEconomics/dags" +urls.Repository = "https://github.com/OpenSourceEconomics/dags" +urls.Tracker = "https://github.com/OpenSourceEconomics/dags/issues" [tool.hatch.build.hooks.vcs] version-file = "src/dags/_version.py" @@ -57,110 +51,45 @@ only-packages = true [tool.hatch.build.targets.wheel] only-include = [ "src" ] sources = [ "src" ] -include = [ - "src/dags/py.typed", -] - -[tool.hatch.version] -source = "vcs" [tool.hatch.metadata] allow-direct-references = true -# ====================================================================================== -# Pixi -# ====================================================================================== - -[tool.pixi.workspace] -channels = [ "conda-forge" ] -platforms = [ "linux-64", "osx-64", "osx-arm64", "win-64" ] - -# Development Dependencies -# -------------------------------------------------------------------------------------- - -[tool.pixi.dependencies] -python = ">=3.11,<3.15" -jupyterlab = "*" -pre-commit = "*" -pytest = "*" -pytest-cov = "*" -pytest-xdist = "*" - -[tool.pixi.pypi-dependencies] -dags = { path = ".", editable = true } -ty = ">=0.0.11" -types-networkx = ">=3.6.1.20251220" -pdbp = "*" - -# Features and Tasks -# -------------------------------------------------------------------------------------- - -[tool.pixi.feature.tests.tasks] -tests = "pytest tests" -tests-with-cov = "pytest tests --cov-report=xml --cov=./" -ty = "ty check" - -# Python versions for testing -# -------------------------------------------------------------------------------------- - -[tool.pixi.feature.py311.dependencies] -python = "~=3.11.0" - -[tool.pixi.feature.py312.dependencies] -python = "~=3.12.0" - -[tool.pixi.feature.py313.dependencies] -python = "~=3.13.0" - -[tool.pixi.feature.py314.dependencies] -python = "~=3.14.0" - -# Environments -# -------------------------------------------------------------------------------------- - -[tool.pixi.environments] -py311 = [ "py311", "tests" ] -py312 = [ "py312", "tests" ] -py313 = [ "py313", "tests" ] -py314 = [ "py314", "tests" ] - -# ====================================================================================== -# Ruff configuration -# ====================================================================================== +[tool.hatch.version] +source = "vcs" [tool.ruff] -fix = true target-version = "py311" +fix = true unsafe-fixes = false -[tool.ruff.lint] -extend-ignore = [ +lint.select = [ "ALL" ] +lint.extend-ignore = [ "ANN401", # Dynamically typed expressions (typing.Any) are disallowed "COM812", # Conflicts with ruff-format "EM101", # Exception must not use a string literal "EM102", # Exception must not use an f-string literal + "FIX002", # Line contains TODO "ISC001", # Conflicts with ruff-format + "TC001", # Move application import into a type-checking block "TC002", # Move third-party import into a type-checking block "TC003", # Move standard library import into a type-checking block "TRY003", # Long messages outside exception class ] -select = [ "ALL" ] - -[tool.ruff.lint.per-file-ignores] -"docs/*" = [ +lint.per-file-ignores."docs/*" = [ "D100", # Missing docstring in public module "D103", # Missing docstring in public function "D104", # Missing docstring in public package ] -"docs/source/conf.py" = [ +lint.per-file-ignores."docs/source/conf.py" = [ "ERA001", # Found commented-out code "INP001", # Implicit namespace package "RUF100", # Unused noqa directive ] -"src/dags/tree/__init__.py" = [ +lint.per-file-ignores."src/dags/tree/__init__.py" = [ "RUF022", # __all__ is not sorted ] -"tests/*" = [ +lint.per-file-ignores."tests/*" = [ "ANN001", # Missing type annotation for function argument "ANN002", # Missing type annotation for *args "ANN003", # Missing type annotation for **kwargs @@ -176,16 +105,19 @@ select = [ "ALL" ] "PLR2004", # Magic value used in comparison "S101", # Use of assert detected ] -"tests/test_dag.py" = [ +lint.per-file-ignores."tests/test_dag.py" = [ "ARG001", # Unused function argument ] +lint.pydocstyle.convention = "google" -[tool.ruff.lint.pydocstyle] -convention = "google" - -# ====================================================================================== -# ty configuration -# ====================================================================================== +[tool.pytest.ini_options] +addopts = [ "--pdbcls=pdbp:Pdb" ] +filterwarnings = [ ] +markers = [ + "wip: Tests that are work-in-progress.", + "slow: Tests that take a long time to run and are skipped in continuous integration.", +] +norecursedirs = [ "docs" ] [tool.ty.rules] ambiguous-protocol-member = "error" @@ -209,22 +141,48 @@ useless-overload-body = "error" [tool.ty.src] exclude = [ "docs/source/example/example.ipynb" ] -# ====================================================================================== -# pytest configuration -# ====================================================================================== +[tool.pixi.dependencies] +jupyterlab = "*" +prek = "*" +python = ">=3.11,<3.15" -[tool.pytest.ini_options] -addopts = [ "--pdbcls=pdbp:Pdb" ] -filterwarnings = [ ] -markers = [ - "wip: Tests that are work-in-progress.", - "slow: Tests that take a long time to run and are skipped in continuous integration.", -] -norecursedirs = [ "docs" ] +[tool.pixi.environments] +py311 = [ "py311", "tests" ] +py312 = [ "py312", "tests" ] +py313 = [ "py313", "tests" ] +py314 = [ "py314", "tests" ] -# ====================================================================================== -# yamlfix configuration -# ====================================================================================== +[tool.pixi.feature.py311.dependencies] +python = "~=3.11.0" + +[tool.pixi.feature.py312.dependencies] +python = "~=3.12.0" + +[tool.pixi.feature.py313.dependencies] +python = "~=3.13.0" + +[tool.pixi.feature.py314.dependencies] +python = "~=3.14.0" + +[tool.pixi.feature.tests.pypi-dependencies] +pytest = "*" +pytest-cov = "*" +pytest-xdist = "*" +ty = "*" +types-networkx = "*" + +[tool.pixi.feature.tests.tasks] +tests = "pytest" +tests-with-cov = "pytest --cov-report=xml --cov=./" +ty = "ty check" + +[tool.pixi.pypi-dependencies] +dags = { path = ".", editable = true } +pdbp = "*" + +[tool.pixi.workspace] +channels = [ "conda-forge" ] +platforms = [ "linux-64", "osx-64", "osx-arm64", "win-64" ] [tool.yamlfix] line_length = 88 diff --git a/src/dags/dag.py b/src/dags/dag.py index 9bca46c..8d77c70 100644 --- a/src/dags/dag.py +++ b/src/dags/dag.py @@ -5,7 +5,7 @@ import functools import inspect import warnings -from collections.abc import Mapping +from collections.abc import Mapping, Sequence from dataclasses import dataclass from typing import TYPE_CHECKING, Any, Literal, cast @@ -94,8 +94,8 @@ def return_annotation(self) -> str: def concatenate_functions( # noqa: PLR0913 - functions: Mapping[str, Callable[..., Any]] | list[Callable[..., Any]], - targets: str | list[str] | None = None, + functions: Mapping[str, Callable[..., Any]] | Sequence[Callable[..., Any]], + targets: str | Sequence[str] | None = None, *, dag: nx.DiGraph[str] | None = None, return_type: Literal["tuple", "list", "dict"] = "tuple", @@ -182,8 +182,8 @@ def concatenate_functions( # noqa: PLR0913 def create_dag( - functions: Mapping[str, Callable[..., Any]] | list[Callable[..., Any]], - targets: str | list[str] | None, + functions: Mapping[str, Callable[..., Any]] | Sequence[Callable[..., Any]], + targets: str | Sequence[str] | None, ) -> nx.DiGraph[str]: """Build a directed acyclic graph (DAG) from functions. @@ -223,8 +223,8 @@ def create_dag( def _create_combined_function_from_dag( # noqa: PLR0913 dag: nx.DiGraph[str], - functions: Mapping[str, Callable[..., Any]] | list[Callable[..., Any]], - targets: str | list[str] | None, + functions: Mapping[str, Callable[..., Any]] | Sequence[Callable[..., Any]], + targets: str | Sequence[str] | None, return_type: Literal["tuple", "list", "dict"] = "tuple", aggregator: Callable[[T, T], T] | None = None, aggregator_return_type: str | None = None, @@ -358,8 +358,8 @@ def _create_combined_function_from_dag( # noqa: PLR0913 def get_ancestors( - functions: Mapping[str, Callable[..., Any]] | list[Callable[..., Any]], - targets: str | list[str] | None, + functions: Mapping[str, Callable[..., Any]] | Sequence[Callable[..., Any]], + targets: str | Sequence[str] | None, *, include_targets: bool = False, ) -> set[str]: @@ -395,8 +395,8 @@ def get_ancestors( def harmonize_and_check_functions_and_targets( - functions: Mapping[str, Callable[..., Any]] | list[Callable[..., Any]], - targets: str | list[str] | None, + functions: Mapping[str, Callable[..., Any]] | Sequence[Callable[..., Any]], + targets: str | Sequence[str] | None, ) -> tuple[dict[str, Callable[..., Any]], list[str]]: """Harmonize the type of specified functions and targets and do some checks. @@ -422,7 +422,7 @@ def harmonize_and_check_functions_and_targets( def _harmonize_functions( - functions: Mapping[str, Callable[..., Any]] | list[Callable[..., Any]], + functions: Mapping[str, Callable[..., Any]] | Sequence[Callable[..., Any]], ) -> dict[str, Callable[..., Any]]: if isinstance(functions, Mapping): return {k: v for k, v in functions.items()} # noqa: C416 # ty: ignore[invalid-return-type] @@ -430,14 +430,14 @@ def _harmonize_functions( def _harmonize_targets( - targets: str | list[str] | None, + targets: str | Sequence[str] | None, function_names: list[str], ) -> list[str]: if targets is None: - targets = function_names - elif isinstance(targets, str): - targets = [targets] - return targets + return function_names + if isinstance(targets, str): + return [targets] + return list(targets) def _fail_if_targets_have_wrong_types( diff --git a/src/dags/output.py b/src/dags/output.py index 09c5d57..63522c5 100644 --- a/src/dags/output.py +++ b/src/dags/output.py @@ -9,7 +9,7 @@ from dags.exceptions import DagsError if TYPE_CHECKING: - from collections.abc import Callable + from collections.abc import Callable, Sequence from typing import Any from typing_extensions import Unpack @@ -58,20 +58,23 @@ def wrapper_single_output(*args: P.args, **kwargs: P.kwargs) -> T: @overload def dict_output( - func: Callable[P, tuple[T, ...]], *, keys: list[str], set_annotations: bool = False + func: Callable[P, tuple[T, ...]], + *, + keys: Sequence[str], + set_annotations: bool = False, ) -> Callable[P, dict[str, T]]: ... @overload def dict_output( - *, keys: list[str], set_annotations: bool = False + *, keys: Sequence[str], set_annotations: bool = False ) -> Callable[[Callable[P, tuple[T, ...]]], Callable[P, dict[str, T]]]: ... def dict_output( func: Callable[P, tuple[T, ...]] | None = None, *, - keys: list[str] | None = None, + keys: Sequence[str] | None = None, set_annotations: bool = False, ) -> ( Callable[P, dict[str, T]] diff --git a/src/dags/signature.py b/src/dags/signature.py index b8ed196..04b633e 100644 --- a/src/dags/signature.py +++ b/src/dags/signature.py @@ -4,7 +4,7 @@ import functools import inspect -from collections.abc import Mapping +from collections.abc import Mapping, Sequence from typing import TYPE_CHECKING, Any, cast, overload from dags.annotations import get_annotations @@ -77,8 +77,8 @@ def _create_annotations( def with_signature( func: Callable[P, R], *, - args: Mapping[str, str] | list[str] | None = None, - kwargs: Mapping[str, str] | list[str] | None = None, + args: Mapping[str, str] | Sequence[str] | None = None, + kwargs: Mapping[str, str] | Sequence[str] | None = None, enforce: bool = True, return_annotation: Any = inspect.Parameter.empty, ) -> Callable[P, R]: ... @@ -87,8 +87,8 @@ def with_signature( @overload def with_signature( *, - args: Mapping[str, str] | list[str] | None = None, - kwargs: Mapping[str, str] | list[str] | None = None, + args: Mapping[str, str] | Sequence[str] | None = None, + kwargs: Mapping[str, str] | Sequence[str] | None = None, enforce: bool = True, return_annotation: Any = inspect.Parameter.empty, ) -> Callable[[Callable[P, R]], Callable[P, R]]: ... @@ -97,8 +97,8 @@ def with_signature( def with_signature( func: Callable[P, R] | None = None, *, - args: Mapping[str, str] | list[str] | None = None, - kwargs: Mapping[str, str] | list[str] | None = None, + args: Mapping[str, str] | Sequence[str] | None = None, + kwargs: Mapping[str, str] | Sequence[str] | None = None, enforce: bool = True, return_annotation: Any = inspect.Parameter.empty, ) -> Callable[P, R] | Callable[[Callable[P, R]], Callable[P, R]]: @@ -276,14 +276,18 @@ def wrapper_rename_arguments(*args: P.args, **kwargs: P.kwargs) -> R: def _map_names_to_types( - arg: Mapping[str, str] | list[str] | None, + arg: Mapping[str, str] | Sequence[str] | None, ) -> dict[str, str] | dict[str, type[inspect._empty]]: if arg is None: return {} - if isinstance(arg, list): - return dict.fromkeys(arg, inspect.Parameter.empty) if isinstance(arg, Mapping): return dict(arg) + if isinstance(arg, str): + raise DagsError( + f"Invalid type for arg: {type(arg)}. Expected Mapping, Sequence, or None." + ) + if isinstance(arg, Sequence): + return dict.fromkeys(arg, inspect.Parameter.empty) raise DagsError( - f"Invalid type for arg: {type(arg)}. Expected Mapping, list, or None." + f"Invalid type for arg: {type(arg)}. Expected Mapping, Sequence, or None." ) diff --git a/src/dags/tree/dag_tree.py b/src/dags/tree/dag_tree.py index 474d927..a50ac2c 100644 --- a/src/dags/tree/dag_tree.py +++ b/src/dags/tree/dag_tree.py @@ -28,7 +28,7 @@ ) if TYPE_CHECKING: - from collections.abc import Callable + from collections.abc import Callable, Sequence import networkx as nx @@ -45,7 +45,7 @@ def create_tree_with_input_types( functions: NestedFunctionDict, targets: NestedTargetDict | None = None, - top_level_inputs: set[str] | list[str] | tuple[str, ...] = (), + top_level_inputs: set[str] | Sequence[str] = (), ) -> NestedInputStructureDict: """Create a nested input structure template based on the functions and targets. diff --git a/src/dags/tree/validation.py b/src/dags/tree/validation.py index c9f98ed..cc8e90a 100644 --- a/src/dags/tree/validation.py +++ b/src/dags/tree/validation.py @@ -12,6 +12,8 @@ from dags.utils import format_list_linewise if TYPE_CHECKING: + from collections.abc import Sequence + from dags.tree.typing import ( NestedFunctionDict, NestedInputDict, @@ -27,7 +29,7 @@ def fail_if_paths_are_invalid( # noqa: PLR0913 data_tree: NestedStructureDict | None = None, input_structure: NestedInputDict | None = None, targets: NestedTargetDict | None = None, - top_level_namespace: set[str] | list[str] | tuple[str, ...] = (), + top_level_namespace: set[str] | Sequence[str] = (), ) -> None: """Fail if the paths in the (different parts of the) functions tree are invalid. diff --git a/tests/test_signature.py b/tests/test_signature.py index a4d9bd5..a67b763 100644 --- a/tests/test_signature.py +++ b/tests/test_signature.py @@ -209,6 +209,6 @@ def f(d: int, e: float, *, f: bool) -> float: def test_with_signature_invalid_args_type() -> None: with pytest.raises(DagsError, match="Invalid type for arg"): - @with_signature(args="invalid") # ty: ignore[invalid-argument-type] + @with_signature(args="invalid") def f(*args, **kwargs): pass