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release 1.4.0 #218

Merged
merged 67 commits into from
Mar 25, 2024
Merged

release 1.4.0 #218

merged 67 commits into from
Mar 25, 2024

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cleder
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@cleder cleder commented Mar 25, 2024

User description

workerB


Type

enhancement, tests


Description

  • Introduced Hypothesis strategies for generating test data for all geometry types in pygeoif/hypothesis/strategies.py.
  • Implemented Hypothesis-based tests for GeometryCollection objects in tests/hypothesis/test_geometrycollection.py.
  • Updated the version number to 1.4.0 in pygeoif/about.py.
  • Documented the addition of Hypothesis tests, removal of Python 3.7 support, and other enhancements in version 1.4.0 in docs/HISTORY.rst.
  • Added Hypothesis as a dependency for tests and updated the Python version requirement from ">=3.7" to ">=3.8" in pyproject.toml.

Changes walkthrough

Relevant files
Enhancement
strategies.py
Add Hypothesis Strategies for Geometry Test Data Generation

pygeoif/hypothesis/strategies.py

  • Introduced Hypothesis strategies for generating test data for all
    geometry types.
  • Added strategies for generating 2D and 3D point coordinates with
    optional spatial reference system (SRS) support.
  • Provided strategies for creating complex geometries like LineStrings,
    Polygons, MultiPoints, MultiLineStrings, MultiPolygons, and
    GeometryCollections with customizable parameters.
  • Utilized Hypothesis composite strategies for flexible and powerful
    test data generation.
  • +609/-0 
    about.py
    Update Version Number to 1.4.0                                                     

    pygeoif/about.py

    • Updated the version number from "1.3.0" to "1.4.0".
    +1/-1     
    Tests
    test_geometrycollection.py
    Implement Hypothesis Tests for GeometryCollection               

    tests/hypothesis/test_geometrycollection.py

  • Implemented Hypothesis-based tests for GeometryCollection objects.
  • Tested GeometryCollection WKT serialization and deserialization.
  • Verified the correctness of repr and shape functions for
    GeometryCollection objects.
  • +45/-0   
    Documentation
    HISTORY.rst
    Document Changes in Version 1.4.0                                               

    docs/HISTORY.rst

  • Documented the addition of Hypothesis tests and related enhancements
    in version 1.4.0.
  • Noted the removal of Python 3.7 support and other minor fixes.
  • +15/-5   
    Configuration changes
    pyproject.toml
    Add Hypothesis Dependency and Update Python Version Requirement

    pyproject.toml

  • Added Hypothesis as a dependency for tests.
  • Updated the Python version requirement from ">=3.7" to ">=3.8".
  • +6/-2     

    PR-Agent usage:
    Comment /help on the PR to get a list of all available PR-Agent tools and their descriptions

    bpshaver and others added 30 commits November 5, 2023 18:33
    Adding the Hypothesis cache dir to .gitignore
    Grammar fixes in geometry.py
    Hypothesis dep in pyproject.toml without version peg
    Initial strategies in conftest.py. This is the only file name I could use that didn't cause an issue with the name-tests-test pre-commit hook. 'strategies.py' would be better because strictly speaking these aren't fixtures.
    An example test for encode/decode invariance.
    updates:
    - [github.com/astral-sh/ruff-pre-commit: v0.1.14 → v0.2.0](astral-sh/ruff-pre-commit@v0.1.14...v0.2.0)
    - [github.com/python-jsonschema/check-jsonschema: 0.27.3 → 0.27.4](python-jsonschema/check-jsonschema@0.27.3...0.27.4)
    [pre-commit.ci] pre-commit autoupdate
    updates:
    - [github.com/astral-sh/ruff-pre-commit: v0.2.0 → v0.2.1](astral-sh/ruff-pre-commit@v0.2.0...v0.2.1)
    - [github.com/python-jsonschema/check-jsonschema: 0.27.4 → 0.28.0](python-jsonschema/check-jsonschema@0.27.4...0.28.0)
    [pre-commit.ci] pre-commit autoupdate
    updates:
    - [github.com/psf/black: 24.1.1 → 24.2.0](psf/black@24.1.1...24.2.0)
    - [github.com/astral-sh/ruff-pre-commit: v0.2.1 → v0.2.2](astral-sh/ruff-pre-commit@v0.2.1...v0.2.2)
    [pre-commit.ci] pre-commit autoupdate
    updates:
    - [github.com/astral-sh/ruff-pre-commit: v0.2.2 → v0.3.2](astral-sh/ruff-pre-commit@v0.2.2...v0.3.2)
    - [github.com/pre-commit/mirrors-mypy: v1.8.0 → v1.9.0](pre-commit/mirrors-mypy@v1.8.0...v1.9.0)
    [pre-commit.ci] pre-commit autoupdate
    updates:
    - [github.com/psf/black: 24.2.0 → 24.3.0](psf/black@24.2.0...24.3.0)
    - [github.com/astral-sh/ruff-pre-commit: v0.3.2 → v0.3.3](astral-sh/ruff-pre-commit@v0.3.2...v0.3.3)
    [pre-commit.ci] pre-commit autoupdate
    updates:
    - [github.com/psf/black: 23.10.1 → 23.11.0](psf/black@23.10.1...23.11.0)
    - [github.com/astral-sh/ruff-pre-commit: v0.1.4 → v0.1.5](astral-sh/ruff-pre-commit@v0.1.4...v0.1.5)
    - [github.com/pre-commit/mirrors-mypy: v1.6.1 → v1.7.0](pre-commit/mirrors-mypy@v1.6.1...v1.7.0)
    updates:
    - [github.com/hakancelikdev/unimport: 1.0.0 → 1.1.0](hakancelikdev/unimport@1.0.0...1.1.0)
    - [github.com/astral-sh/ruff-pre-commit: v0.1.5 → v0.1.6](astral-sh/ruff-pre-commit@v0.1.5...v0.1.6)
    it cannot be guaranteed that objects which compare equal have the same hash value
    updates:
    - [github.com/pre-commit/mirrors-mypy: v1.7.0 → v1.7.1](pre-commit/mirrors-mypy@v1.7.0...v1.7.1)
    - [github.com/python-jsonschema/check-jsonschema: 0.27.1 → 0.27.2](python-jsonschema/check-jsonschema@0.27.1...0.27.2)
    Bumps [actions/setup-python](https://github.com/actions/setup-python) from 4 to 5.
    - [Release notes](https://github.com/actions/setup-python/releases)
    - [Commits](actions/setup-python@v4...v5)
    
    ---
    updated-dependencies:
    - dependency-name: actions/setup-python
      dependency-type: direct:production
      update-type: version-update:semver-major
    ...
    
    Signed-off-by: dependabot[bot] <[email protected]>
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    semanticdiff-com bot commented Mar 25, 2024

    Review changes with SemanticDiff.

    Analyzed 21 of 30 files.

    Overall, the semantic diff is 5% smaller than the GitHub diff.

    File Information
    Filename Status
    .github/workflows/run-all-tests.yml Unsupported file format
    .gitignore Unsupported file format
    .pre-commit-config.yaml Unsupported file format
    .sourcery.yaml Unsupported file format
    README.rst Unsupported file format
    docs/HISTORY.rst Unsupported file format
    ✔️ docs/conf.py 14.29% smaller
    docs/pygeoif.rst Unsupported file format
    ✔️ pygeoif/about.py Analyzed
    ✔️ pygeoif/factories.py 51.84% smaller
    ✔️ pygeoif/functions.py 27.6% smaller
    ✔️ pygeoif/geometry.py 41.14% smaller
    ✔️ pygeoif/hypothesis/__init__.py Analyzed
    ✔️ pygeoif/hypothesis/strategies.py Analyzed
    ✔️ pygeoif/types.py 23.01% smaller
    pyproject.toml Unsupported file format
    ✔️ tests/conftest.py Analyzed
    ✔️ tests/hypothesis/__init__.py Analyzed
    ✔️ tests/hypothesis/test_geometrycollection.py Analyzed
    ✔️ tests/hypothesis/test_line.py Analyzed
    ✔️ tests/hypothesis/test_linear_ring.py Analyzed
    ✔️ tests/hypothesis/test_multilinestring.py Analyzed
    ✔️ tests/hypothesis/test_multipoint.py Analyzed
    ✔️ tests/hypothesis/test_multipolygon.py Analyzed
    ✔️ tests/hypothesis/test_point.py Analyzed
    ✔️ tests/hypothesis/test_polygon.py Analyzed
    ✔️ tests/test_factories.py Analyzed
    ✔️ tests/test_functions.py Analyzed
    ✔️ tests/test_geometrycollection.py Analyzed
    tox.ini Unsupported file format

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    Hello @cleder! Thanks for opening this PR. We checked the lines you've touched for PEP 8 issues, and found:

    Line 14:1: E402 module level import not at top of file

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    what-the-diff bot commented Mar 25, 2024

    PR Summary

    • Updated Testing Workflow
      Changes have been made to our testing workflow file. We've ceased testing for Python version '3.7' and started testing for the development version '3.13'. New testing jobs were added, focusing on implementing coverage reports and hypothesis tests. Furthermore, coverage reports are now solely done when testing with Python version '3.11'.

    • Improved File Tracking and Code Styling
      Some ignored files in .gitignore have been specified more accurately. Our code styling tools have been updated to the latest versions. This will help to maintain our code quality.

    • Updated Refactoring Tool
      Our automatic refactoring tool, sourcery, has been updated to work with Python version '3.8'.

    • Enhanced Documentation
      The README.rst and HISTORY.rst files have been updated for better readability, more details about our versions and other relevant information.

    • Codebase Changes
      Several Python files have been updated, implementing more precise type hints and improving several functions and methods, such as the convex_hull function that now uses a more efficient algorithm.

    • Updated Python Requirements
      The minimum python requirement updated to '3.8'. This allows for usage of more modern Python features.

    • New Tests and Additions
      A plethora of new test cases have been added. They cover many aspects, such as testing new classes and functions, validating properties of geometries, etc. In addition, a file to handle these tests better (conftest.py) was introduced.

    • Implementing the Hypothesis Testing Framework
      This PR witnessed the implementation of the Hypothesis testing framework in our code. This approach allows us to generate test inputs automatically, identify edge cases and do much thorough testing.

    • Updated Python Environments
      The python environments that our unit tests are run on have been updated to accommodate the changes we made.

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    PR Description updated to latest commit (881b457)

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    PR Description updated to latest commit (881b457)

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    PR Review

    ⏱️ Estimated effort to review [1-5]

    2, because the PR introduces a significant amount of new code, particularly with the addition of Hypothesis strategies for testing. However, the changes are well-organized and focused on testing and minor improvements, which simplifies the review process.

    🧪 Relevant tests

    Yes

    🔍 Possible issues

    Possible Bug in GeometryCollection WKT Parsing: The PR mentions fixing from_wkt to include multi geometries in GeometryCollections. It's important to ensure that this fix is comprehensive and doesn't introduce any regressions in WKT parsing capabilities.

    Potential Performance Concerns: The addition of Hypothesis tests could potentially impact test suite execution time. It's recommended to monitor the impact on CI build times and consider adjustments if necessary.

    🔒 Security concerns

    No


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    qodo-merge-pro bot commented Mar 25, 2024

    PR Code Suggestions

    CategorySuggestions                                                                                                                                                       
    Enhancement
    Enhance the coordinate function to accept additional arguments dynamically.

    **To ensure that the coordinate partial function is reusable and customizable for different
    strategies, consider adding kwargs to allow passing additional arguments such as
    min_value and max_value directly. This enhancement will make the function more flexible
    and reduce redundancy in specifying these values in multiple places.

    pygeoif/hypothesis/strategies.py [43-48]

     coordinate = partial(
         st.floats,
         allow_infinity=False,
         allow_nan=False,
         allow_subnormal=False,
         width=32,
    +    **kwargs,  # Allows passing additional arguments dynamically
     )
     
    Add validation for min_xyz and max_xyz in the Srs dataclass.

    For the Srs dataclass, consider adding a method to validate the min_xyz and max_xyz
    attributes to ensure they are within reasonable bounds. This validation can prevent
    potential errors when generating coordinates based on these values.

    pygeoif/hypothesis/strategies.py [52-69]

     @dataclass(frozen=True)
     class Srs:
         name: str
         min_xyz: Tuple[Optional[float], Optional[float], Optional[float]]
         max_xyz: Tuple[Optional[float], Optional[float], Optional[float]]
     
    +    def __post_init__(self):
    +        # Example validation logic
    +        if self.min_xyz[0] is not None and self.max_xyz[0] is not None:
    +            if self.min_xyz[0] > self.max_xyz[0]:
    +                raise ValueError("Minimum X value cannot be greater than maximum X value.")
    +
    Set default max_points to reflect minimum valid geometry in line_strings and linear_rings.

    To ensure that the max_points parameter in line_strings and linear_rings functions adheres
    to their geometric definitions, consider adding a default value that reflects the minimum
    required points for a valid geometry. For line_strings, a minimum of 2 points is required,
    and for linear_rings, at least 4 points are needed to form a valid ring.

    pygeoif/hypothesis/strategies.py [257-263]

     def line_strings(
         draw: st.DrawFn,
         *,
    -    max_points: Optional[int] = None,
    +    max_points: int = 2,  # Default to the minimum valid value
         srs: Optional[Srs] = None,
         has_z: Optional[bool] = None,
     ) -> LineString:
     
    Rename max_points to max_size in multi_points for clarity.

    To avoid potential confusion and ensure clarity in the API, consider renaming the
    max_points parameter in the multi_points function to max_size or max_count. This change
    would make it clearer that the parameter controls the number of points in the MultiPoint
    object, not the maximum value of the points themselves.

    pygeoif/hypothesis/strategies.py [407-414]

     def multi_points(
         draw: st.DrawFn,
         *,
    -    min_points: int = 1,
    -    max_points: Optional[int] = None,
    +    min_size: int = 1,  # Renamed for clarity
    +    max_size: Optional[int] = None,  # Renamed for clarity
         srs: Optional[Srs] = None,
         has_z: Optional[bool] = None,
     ) -> MultiPoint:
     
    Add GEOMETRYCOLLECTION to the regular expression to handle all geometry types.

    The regular expression gcre is updated to include more geometry types but lacks the
    GEOMETRYCOLLECTION type. Consider adding it to handle all geometry types appropriately.

    pygeoif/factories.py [58-60]

     gcre: Pattern[str] = re.compile(
    -    r"POINT|LINESTRING|LINEARRING|POLYGON|MULTIPOINT|MULTILINESTRING|MULTIPOLYGON",
    +    r"POINT|LINESTRING|LINEARRING|POLYGON|MULTIPOINT|MULTILINESTRING|MULTIPOLYGON|GEOMETRYCOLLECTION",
     )
     
    Add more specific property tests for line geometries to cover edge cases.

    The tests for line geometries include several @given decorators from Hypothesis. While
    these tests are well-structured, consider adding edge case scenarios or more specific
    property tests to further validate the geometrical operations and properties. For example,
    testing with extremely large coordinates, lines with zero length, or lines that form
    specific shapes could uncover edge cases not covered by more general tests.

    tests/hypothesis/test_line.py [36-37]

    -@given(line_strings())
    -def test_bounds(line: geometry.LineString) -> None:
    +# Example for an additional test case
    +@given(line_strings(min_points=2, max_points=2, allow_collinear=True))
    +def test_zero_length_line_bounds(line: geometry.LineString) -> None:
     
    Add a description or example for the Hypothesis strategies.

    Consider adding a brief description or usage example for the Hypothesis strategies
    provided for geometries. This will help users understand how they can leverage these
    strategies for property-based testing in their projects.

    README.rst [36-37]

     It provides Hypothesis strategies for all geometries for property based
    -testing with Hypothesis_.
    +testing with Hypothesis_. These strategies can be used to generate random geometries for testing purposes, enhancing the robustness of your tests.
     
    Align the visual style of newly added badges.

    For the newly added badges, consider aligning their visual style to ensure a consistent
    and professional look in the README file.

    README.rst [53-55]

    -.. image:: https://img.shields.io/badge/property_based_tests-hypothesis-green
    +.. image:: https://img.shields.io/badge/property_based_tests-hypothesis-green?style=flat-square
         :target: https://hypothesis.works
         :alt: Hypothesis
     
    Add a section on how to contribute to the project.

    Add a section or a note about how to contribute to the project, including running tests
    with Hypothesis. This encourages community contributions and helps new contributors get
    started.

    README.rst [420]

     .. _Hypothesis: https://hypothesis.works
     
    +Contributing
    +------------
    +We welcome contributions! To get started, please see our contribution guidelines. To run tests locally, you'll need to install Hypothesis.
    +
    Maintainability
    Refactor repeated srs checks into a helper function to reduce code duplication.

    To improve code readability and maintainability, consider refactoring the repeated pattern
    of checking srs and setting longitudes, latitudes, and elevations in _point_coords_2d and
    _point_coords_3d functions into a separate helper function. This will reduce code
    duplication and make the codebase easier to maintain.

    pygeoif/hypothesis/strategies.py [127-129]

    -if srs:
    -    longitudes = srs.longitudes()
    -    latitudes = srs.latitudes()
    +def get_coordinates(srs, dimension='2d'):
    +    if dimension == '2d':
    +        return srs.longitudes(), srs.latitudes()
    +    else:
    +        return srs.longitudes(), srs.latitudes(), srs.elevations()
     
    Refactor code to avoid direct len usage in conditions for better readability.

    The convex_hull function uses noqa: PLR2004 to bypass linting rules. Consider refactoring
    the code to avoid using len in conditions directly, enhancing readability and
    maintainability.

    pygeoif/functions.py [124]

    -if len(points) <= 2:  # noqa: PLR2004
    +points_count = len(points)
    +if points_count <= 2:
     
    Update the from_coordinates method's type hint for clarity and consistency.

    The method from_coordinates in the LineString class uses a type hint for coordinates that
    is not consistent with the method's documentation and usage. Update the type hint to match
    the expected input.

    pygeoif/geometry.py [407]

    -def from_coordinates(cls, coordinates: LineType) -> "LineString":
    +def from_coordinates(cls, coordinates: Sequence[PointType]) -> "LineString":
     
    Integrate new line and polygon types throughout the codebase.

    The introduction of Line2D, Line3D, Poly2d, and Poly3d types adds clarity to the type
    definitions. However, it's important to ensure that these new types are fully integrated
    and utilized throughout the codebase. This includes updating function signatures, type
    checks, and documentation to reflect the new, more specific types. This will enhance code
    readability and maintainability by making the expected data structures clearer.

    pygeoif/types.py [33-48]

    -Line2D = Sequence[Point2D]
    -Line3D = Sequence[Point3D]
    -LineType = Union[Line2D, Line3D]
    +# Ensure that functions accepting or returning lines use LineType in their type hints.
     
    Possible issue
    Ensure input is sorted for the groupby function in dedupe to work correctly.

    The dedupe function uses groupby without sorting the input, which may not work as expected
    for unsorted data. Ensure the input is sorted or revise the approach to handle unsorted
    data correctly.

    pygeoif/functions.py [79]

    -return cast(LineType, tuple(coord for coord, _count in groupby(coords)))
    +return cast(LineType, tuple(coord for coord, _ in groupby(sorted(coords))))
     
    Bug
    Remove or correct the nonsensical assertion in the test.

    The assertion assert gc1 != gc1 is always false and does not make sense in a test. It
    looks like a mistake. Review the logic behind this assertion.

    tests/test_geometrycollection.py [399]

    -assert gc1 != gc1  # noqa: PLR0124
    +# Correct or remove the assertion as appropriate
     
    Best practice
    Use consistent data structures for assertions in test cases.

    Consider using a consistent data structure for assertions in test cases. In the updated
    code, tuples are used for assertions, whereas the original code used lists. This
    inconsistency might lead to confusion or errors in future test modifications or when
    comparing results. It's generally a good practice to stick to one type of data structure
    for similar operations unless there's a specific reason to do otherwise.

    tests/test_functions.py [154]

    -assert hull == ((0, 0), (1, 0), (1, 1), (0, 0))
    +assert hull == [(0, 0), (1, 0), (1, 1), (0, 0)]
     
    Add job dependencies to the GitHub Actions workflow to optimize CI resource usage.

    The workflow has been split into separate jobs for running tests with and without
    hypothesis, and for test coverage. This modular approach is good for clarity and specific
    testing goals. However, consider adding job dependencies using needs to ensure that basic
    tests pass before running more complex or resource-intensive tests like hypothesis or
    coverage tests. This can help to quickly identify fundamental issues before using more CI
    resources.

    .github/workflows/run-all-tests.yml [29-33]

     hypothesis-tests:
    +  needs: [cpython, static-tests, pypy]
       runs-on: ubuntu-latest
     
    Performance
    Dynamically adjust Hypothesis max_examples based on the environment to optimize test run times.

    Registering the 'exhaustive' profile with 10,000 examples for Hypothesis is a good
    practice for thorough testing. However, running this many examples can be time-consuming,
    especially in CI environments. Consider dynamically adjusting the max_examples based on
    the environment (local vs. CI) to balance thoroughness with test run times. For CI, a
    lower number of examples might be sufficient, while local or pre-release testing could use
    the exhaustive profile.

    tests/conftest.py [11]

    -settings.register_profile("exhaustive", max_examples=10_000)
    +import os
    +max_examples = 10_000 if os.getenv('CI') != 'true' else 1000
    +settings.register_profile("exhaustive", max_examples=max_examples)
     

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    PR Review

    ⏱️ Estimated effort to review [1-5]

    4, because this PR introduces a significant amount of new functionality, including Hypothesis strategies for generating test data, enhancements to existing functions, and updates to testing configurations. The complexity of the changes, especially those related to geometric calculations and the introduction of property-based testing, requires a thorough review to ensure correctness, performance, and compatibility with existing features.

    🧪 Relevant tests

    Yes

    🔍 Possible issues

    Possible Bug in Convex Hull Calculation: The changes to convex_hull function and related geometry calculations need careful review to ensure they correctly handle all edge cases and do not introduce regressions.

    Performance Concerns: The introduction of more comprehensive tests and new geometric operations could impact the library's performance. Benchmarking against previous versions may be necessary to ensure that performance remains acceptable.

    Compatibility with Older Python Versions: Dropping support for Python 3.7 and adding new features might affect users on older Python versions. It's important to clearly communicate these changes in the release notes.

    🔒 Security concerns

    No


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    codiumai-pr-agent-free bot commented Mar 25, 2024

    PR Code Suggestions

    CategorySuggestions                                                                                                                                                       
    Maintainability
    Use more descriptive variable names for better readability.

    Consider using a more descriptive variable name instead of coordinate for the partial
    function that creates a hypothesis strategy for generating float coordinates. A more
    descriptive name could improve code readability and maintainability.

    pygeoif/hypothesis/strategies.py [43-48]

    -coordinate = partial(
    +float_coordinate_strategy = partial(
         st.floats,
         allow_infinity=False,
         allow_nan=False,
         allow_subnormal=False,
         width=32,
     )
     
    Refactor geometry generation strategies for better readability.

    In the geometry_collections function, instead of using st.one_of with a large list of
    strategies, consider defining a separate strategy that encapsulates this logic. This can
    improve code readability and make it easier to manage the strategies used for generating
    different geometry types.

    pygeoif/hypothesis/strategies.py [578-603]

    -st.one_of(
    -    points(srs=srs, has_z=has_z),
    -    line_strings(max_points=max_points, srs=srs, has_z=has_z),
    -    linear_rings(max_points=max_points, srs=srs, has_z=has_z),
    -    polygons(
    -        max_points=max_points,
    -        min_interiors=min_interiors,
    -        max_interiors=max_interiors,
    -        srs=srs,
    -        has_z=has_z,
    -    ),
    -    multi_points(max_points=max_points, srs=srs, has_z=has_z),
    -    multi_line_strings(
    -        max_points=max_points,
    -        max_lines=max_geoms,
    -        srs=srs,
    -        has_z=has_z,
    -    ),
    -    multi_polygons(
    -        max_points=max_points,
    -        min_interiors=min_interiors,
    -        max_interiors=max_interiors,
    -        max_polygons=max_geoms,
    -        srs=srs,
    -        has_z=has_z,
    -    ),
    -)
    +def geometry_strategy(srs, has_z, max_points, max_geoms, min_interiors, max_interiors):
    +    return st.one_of(
    +        points(srs=srs, has_z=has_z),
    +        line_strings(max_points=max_points, srs=srs, has_z=has_z),
    +        linear_rings(max_points=max_points, srs=srs, has_z=has_z),
    +        polygons(
    +            max_points=max_points,
    +            min_interiors=min_interiors,
    +            max_interiors=max_interiors,
    +            srs=srs,
    +            has_z=has_z,
    +        ),
    +        multi_points(max_points=max_points, srs=srs, has_z=has_z),
    +        multi_line_strings(
    +            max_points=max_points,
    +            max_lines=max_geoms,
    +            srs=srs,
    +            has_z=has_z,
    +        ),
    +        multi_polygons(
    +            max_points=max_points,
    +            min_interiors=min_interiors,
    +            max_interiors=max_interiors,
    +            max_polygons=max_geoms,
    +            srs=srs,
    +            has_z=has_z,
    +        ),
    +    )
     
    Use consistent data structures for expected values in tests.

    Consider using a consistent data structure for the expected hull values across all tests
    for clarity and maintainability. If tuples are preferred for immutability or other
    reasons, ensure all tests use tuples. If lists are preferred for their mutability or other
    reasons, ensure all tests use lists.

    tests/test_functions.py [154]

    -assert hull == ((0, 0), (1, 0), (1, 1), (0, 0))
    +assert hull == [(0, 0), (1, 0), (1, 1), (0, 0)]
     
    Improve readability by aligning Union types consistently.

    For better readability and maintainability, consider aligning the Union types in
    PolygonType similarly to Poly2d and Poly3d. This will make the type definitions more
    consistent and easier to understand at a glance.

    pygeoif/types.py [45-48]

    -PolygonType = Union[
    -    Poly2d,
    -    Poly3d,
    -]
    +PolygonType = Union[Poly2d, Poly3d]
     
    Enhancement
    Add validation for min and max XYZ values in the Srs class.

    For the Srs dataclass, consider adding a method to validate the min_xyz and max_xyz upon
    initialization to ensure that the minimum values are not greater than the maximum values.
    This can help prevent logical errors when generating coordinates within these bounds.

    pygeoif/hypothesis/strategies.py [52-69]

     @dataclass(frozen=True)
     class Srs:
         name: str
         min_xyz: Tuple[Optional[float], Optional[float], Optional[float]]
         max_xyz: Tuple[Optional[float], Optional[float], Optional[float]]
     
    +    def __post_init__(self):
    +        for min_val, max_val in zip(self.min_xyz, self.max_xyz):
    +            if min_val is not None and max_val is not None and min_val > max_val:
    +                raise ValueError("Minimum XYZ values must not exceed the maximum XYZ values.")
    +
    Improve error messages for better debugging.

    When raising ValueError in functions like line_strings, linear_rings, and polygons for
    invalid max_points, consider adding more context to the error message, such as the
    function name and the received max_points value. This can help in debugging and
    understanding the source of the error more quickly.

    pygeoif/hypothesis/strategies.py [281]

    -raise ValueError("max_points must be greater than 1")
    +raise ValueError(f"line_strings: max_points must be greater than 1, got {max_points}")
     
    Improve the efficiency and correctness of duplicate removal in dedupe function.

    Consider using a more efficient way to remove duplicates from coords in the dedupe
    function. The current implementation using groupby assumes that the input is sorted and
    only removes consecutive duplicates. If the input is not sorted, this method will not work
    as expected. Instead, you can use an ordered dictionary to preserve the order of elements
    while removing duplicates.

    pygeoif/functions.py [79]

    -return cast(LineType, tuple(coord for coord, _count in groupby(coords)))
    +from collections import OrderedDict
    +return cast(LineType, tuple(OrderedDict.fromkeys(coords)))
     
    Add "GEOMETRYCOLLECTION" to the regular expression for parsing WKT strings.

    The regular expression gcre is updated to include
    "MULTIPOINT|MULTILINESTRING|MULTIPOLYGON" but is missing "GEOMETRYCOLLECTION" which is
    also a valid geometry type in WKT. Consider adding "GEOMETRYCOLLECTION" to the regular
    expression to support parsing WKT strings that represent geometry collections.

    pygeoif/factories.py [58-60]

     gcre: Pattern[str] = re.compile(
    -    r"POINT|LINESTRING|LINEARRING|POLYGON|MULTIPOINT|MULTILINESTRING|MULTIPOLYGON",
    +    r"POINT|LINESTRING|LINEARRING|POLYGON|MULTIPOINT|MULTILINESTRING|MULTIPOLYGON|GEOMETRYCOLLECTION",
     )
     
    Include Python 3.7 in the testing matrix for broader compatibility testing.

    To ensure broad compatibility and catch potential issues across different Python versions,
    consider including Python 3.7 in the testing matrix. This can help identify any
    version-specific issues early in the development process, especially if the library is
    intended to support Python 3.7.

    .github/workflows/run-all-tests.yml [12]

    -python-version: ['3.8', '3.9', '3.10', '3.11', '3.12', '3.13-dev']
    +python-version: ['3.7', '3.8', '3.9', '3.10', '3.11', '3.12', '3.13-dev']
     
    Add a description or example for the Hypothesis strategies.

    Consider adding a brief description or usage example for the Hypothesis strategies
    provided for geometries. This will help users understand how they can leverage these
    strategies for property-based testing in their projects.

    README.rst [36-37]

     It provides Hypothesis strategies for all geometries for property based
    -testing with Hypothesis_.
    +testing with Hypothesis_. These strategies can be used to generate random geometries for testing purposes, ensuring your code handles a wide range of input scenarios.
     
    Improve alt texts for badges for better accessibility and SEO.

    For better accessibility and SEO, consider adding more descriptive alt texts for the newly
    added badges. This helps users who rely on screen readers and also improves the
    discoverability of your documentation.

    README.rst [43-63]

    -:alt: Documentation
    -:alt: Hypothesis
    -:alt: Black
    -:alt: Mypy
    +:alt: Documentation for pygeoif on Read the Docs
    +:alt: Property based testing with Hypothesis for pygeoif
    +:alt: Code style enforced with Black for pygeoif
    +:alt: Type checking with Mypy for pygeoif
     
    Add a table of contents for better navigability.

    To enhance the documentation's navigability, consider adding a table of contents (TOC) at
    the beginning. This would help users quickly find the information they're looking for,
    especially as the documentation grows.

    README.rst [36-37]

    +.. contents::
    +   :local:
    +   :depth: 2
    +
     It provides Hypothesis strategies for all geometries for property based
     testing with Hypothesis_.
     
    Best practice
    Simplify conditional checks for boolean values.

    Instead of using if has_z is True: and if has_z is False: in the point_coords function,
    you can simplify the conditionals by directly using if has_z: and elif not has_z:. This
    makes the code cleaner and more Pythonic.

    pygeoif/hypothesis/strategies.py [183-186]

    -if has_z is True:
    +if has_z:
         return draw(_point_coords_3d(srs=srs))
    -if has_z is False:
    +elif not has_z:
         return draw(_point_coords_2d(srs=srs))
     
    Avoid magic numbers and improve code readability in convex_hull function.

    In the convex_hull function, the condition if len(points) <= 2 uses a code quality rule
    suppression comment # noqa: PLR2004. Instead of suppressing the linting rule, consider
    refactoring the code to avoid using magic numbers directly in the condition. Define a
    constant with a meaningful name to represent the minimum number of points required to form
    a polygon.

    pygeoif/functions.py [124]

    -if len(points) <= 2:  # noqa: PLR2004
    +MIN_POINTS_FOR_POLYGON = 3
    +if len(points) < MIN_POINTS_FOR_POLYGON:
     
    Avoid using .example() in tests for deterministic behavior.

    To avoid potential flakiness in tests due to the stochastic nature of .example(), consider
    using a more deterministic approach for testing the ValueError exception. Using .example()
    can lead to non-deterministic behavior and make tests less reliable.

    tests/hypothesis/test_line.py [17]

    -line_strings(max_points=1).example()
    +with pytest.raises(ValueError):
    +    line_strings(max_points=1)
     
    Enhance test determinism by avoiding .example() for exception testing.

    Similar to the suggestion for test_line.py, consider removing the use of .example() for
    testing exceptions in test_max_points_lt_3. This change aims to enhance the determinism
    and reliability of the test.

    tests/hypothesis/test_linear_ring.py [15]

    -linear_rings(max_points=3).example()
    +with pytest.raises(ValueError):
    +    linear_rings(max_points=3)
     
    Ensure consistency in badge styles.

    To maintain consistency in the documentation, consider using the same badge style for all
    badges. For example, if other badges use a specific color scheme or badge style, ensure
    the new badges for Hypothesis and Black follow suit.

    README.rst [53-57]

    -.. image:: https://img.shields.io/badge/property_based_tests-hypothesis-green
    -.. image:: https://img.shields.io/badge/code_style-black-000000.svg
    +.. image:: https://img.shields.io/badge/property_based_tests-hypothesis-<your_color_scheme>
    +.. image:: https://img.shields.io/badge/code_style-black-<your_color_scheme>.svg
     
    Verify the validity of newly added external links.

    Ensure all external links, especially those added recently, are valid and lead to the
    intended web pages. Broken links can significantly impact user trust and the credibility
    of the documentation.

    README.rst [420]

    -.. _Hypothesis: https://hypothesis.works
    +.. _Hypothesis: https://hypothesis.works  # Ensure this link is valid and accessible
     
    Possible issue
    Remove or correct the self-inequality assertion in tests.

    The assertion assert gc1 != gc1 is likely a mistake, as it checks if an object is not
    equal to itself, which should always be false. This might have been intended as a test for
    the equality operator, but as written, it does not serve a useful testing purpose.
    Consider removing or correcting this line.

    tests/test_geometrycollection.py [399]

    -assert gc1 != gc1  # noqa: PLR0124
    +# Corrected or removed line
     
    Bug
    Ensure consistent tuple structure in Polygon.coords property.

    In the Polygon class, the coords property uses a cast to PolygonType but does not handle
    the case where self._geoms[1] is empty, which could lead to a mismatch in the expected
    tuple structure. It's safer to always return a tuple with two elements, the second being
    an empty tuple if there are no interiors.

    pygeoif/geometry.py [580-588]

    -if self._geoms[1]:
    -    return cast(
    -        PolygonType,
    -        (
    -            self.exterior.coords,
    -            tuple(interior.coords for interior in self.interiors if interior),
    -        ),
    -    )
    -return cast(PolygonType, (self.exterior.coords,))
    +return cast(
    +    PolygonType,
    +    (
    +        self.exterior.coords,
    +        tuple(interior.coords for interior in self.interiors if interior) if self._geoms[1] else (),
    +    ),
    +)
     

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    Hey @cleder - I've reviewed your changes and they look great!

    Here's what I looked at during the review
    • 🟡 General issues: 3 issues found
    • 🟢 Security: all looks good
    • 🟡 Testing: 6 issues found
    • 🟢 Complexity: all looks good
    • 🟢 Docstrings: all looks good

    Sourcery is free for open source - if you like our reviews please consider sharing them ✨
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    Comment on lines +77 to +79
    def dedupe(coords: LineType) -> LineType:
    """Remove duplicate Points from a LineString."""
    return cast(LineType, tuple(coord for coord, _count in groupby(coords)))
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    suggestion (performance): Consider using a set for deduplication to improve efficiency.

    Using a set to remove duplicates before casting back to a tuple might be more efficient than relying on groupby, especially for large datasets.

    Comment on lines +96 to +106
    def _hull(points: Iterable[Point2D]) -> List[Point2D]:
    """Construct the upper/lower hull of a set of points."""
    stack: List[Point2D] = []
    for p in points:
    while (
    len(hull) >= 2 and _cross(o=hull[-2], a=hull[-1], b=p) <= 0 # noqa: PLR2004
    len(stack) >= 2 # noqa: PLR2004
    and _orientation(stack[-2], stack[-1], p) >= 0
    ):
    hull.pop()
    hull.append(p)
    return hull
    stack.pop()
    stack.append(p)
    return stack
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    issue (bug_risk): Ensure that points are sorted before constructing the hull.

    The algorithm assumes that points are pre-sorted. If they're not, the resulting hull might not be correct. Consider adding a sort operation if not already handled.



    @given(geometry_collections(srs=epsg4326))
    def test_from_wkt_epsg_4326(multi_poly: geometry.GeometryCollection) -> None:
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    suggestion (testing): Consider renaming multi_poly to geom_collection for clarity.

    The variable name multi_poly might be misleading in the context of testing GeometryCollection. A name like geom_collection would more accurately reflect the tested type.

    @@ -0,0 +1,45 @@
    """Test MultiPolygons with Hypothesis."""
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    issue (testing): Update the module docstring to reflect the correct test subject.

    The current docstring suggests that the module tests MultiPolygons, but it actually tests GeometryCollection. Please update it accordingly.

    )


    @given(geometry_collections(srs=epsg4326, has_z=False))
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    suggestion (testing): Add tests for mixed dimensionality within GeometryCollection.

    Currently, the tests either use 2D or 3D geometries exclusively. It would be beneficial to add a test case that includes a mix of 2D and 3D geometries within a single GeometryCollection to ensure proper handling of mixed dimensionality.

    assert multi_point == from_wkt(str(multi_point))


    @given(multi_points())
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    suggestion (testing): Verify individual points in MultiPoint after convex hull operation.

    While the test checks the bounds of the convex hull against the MultiPoint, it would be more thorough to also verify that each point within the MultiPoint is correctly represented in the convex hull.

    assert poly == from_wkt(str(poly))


    @given(polygons())
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    suggestion (testing): Ensure Polygon interiors are preserved after convex hull operation.

    The test verifies the bounds of the convex hull, but it should also check that the interiors (holes) of the Polygon are correctly handled or explicitly document the expected behavior if they are not preserved.

    assert line == from_wkt(str(line))


    @given(line_strings())
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    suggestion (testing): Add test for LineString simplification.

    In addition to testing the convex hull, consider adding a test case for LineString simplification to ensure that the simplification process retains the essential shape of the LineString.

    @cleder cleder merged commit c063e04 into main Mar 25, 2024
    69 of 73 checks passed
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