Skip to content

Conversation

@Czaki
Copy link
Contributor

@Czaki Czaki commented Dec 20, 2024

Using cythonize -a to get information when cython contains obsolete python calls.

Summary by CodeRabbit

  • New Features

    • Introduced a new function for triangulating paths using NumPy arrays.
    • Enhanced existing polygon triangulation functionality to support new path triangulation.
    • Added parameterized testing for triangulation functions to improve test coverage.
  • Bug Fixes

    • Improved performance and clarity in handling polygon data.

@coderabbitai
Copy link
Contributor

coderabbitai bot commented Dec 20, 2024

Walkthrough

The pull request introduces a new function triangulate_path_edge_numpy in the triangulation module, designed to handle NumPy array inputs for path triangulation. This function complements the existing triangulation capabilities by providing a direct method for processing 2D float32 NumPy arrays. The modifications also update the triangulate_polygon_with_edge_numpy_li function to integrate the new triangulation approach, enhancing the module's flexibility in working with NumPy-based geometric computations.

Changes

File Change Summary
src/PartSegCore_compiled_backend/triangulate.pyx - Added new function triangulate_path_edge_numpy for NumPy path triangulation
- Updated triangulate_polygon_with_edge_numpy_li to use new triangulation method
src/tests/test_triangulate.py - Modified test for triangulate_path_edge_py to parameterize with triangulate_path_edge_numpy
- Introduced constant PATH_DATA for centralized test cases

Possibly related PRs

  • Add performant triangulation for napari shapes #36: The changes in the main PR introduce a new function triangulate_path_edge_numpy and modify triangulate_polygon_with_edge_numpy_li, which are related to triangulation functionalities. The retrieved PR also focuses on enhancing triangulation methods, indicating a direct connection in terms of functionality and code structure.

Poem

🐰 Triangles dance on NumPy's stage,
Paths transformed with mathematical rage.
Edges curve, arrays align,
Geometry's magic, simply divine!
A rabbit's code, precise and bright 🔺

Tip

CodeRabbit's docstrings feature is now available as part of our Early Access Program! Simply use the command @coderabbitai generate docstrings to have CodeRabbit automatically generate docstrings for your pull request. We would love to hear your feedback on Discord.


Thank you for using CodeRabbit. We offer it for free to the OSS community and would appreciate your support in helping us grow. If you find it useful, would you consider giving us a shout-out on your favorite social media?

❤️ Share
🪧 Tips

Chat

There are 3 ways to chat with CodeRabbit:

  • Review comments: Directly reply to a review comment made by CodeRabbit. Example:
    • I pushed a fix in commit <commit_id>, please review it.
    • Generate unit testing code for this file.
    • Open a follow-up GitHub issue for this discussion.
  • Files and specific lines of code (under the "Files changed" tab): Tag @coderabbitai in a new review comment at the desired location with your query. Examples:
    • @coderabbitai generate unit testing code for this file.
    • @coderabbitai modularize this function.
  • PR comments: Tag @coderabbitai in a new PR comment to ask questions about the PR branch. For the best results, please provide a very specific query, as very limited context is provided in this mode. Examples:
    • @coderabbitai gather interesting stats about this repository and render them as a table. Additionally, render a pie chart showing the language distribution in the codebase.
    • @coderabbitai read src/utils.ts and generate unit testing code.
    • @coderabbitai read the files in the src/scheduler package and generate a class diagram using mermaid and a README in the markdown format.
    • @coderabbitai help me debug CodeRabbit configuration file.

Note: Be mindful of the bot's finite context window. It's strongly recommended to break down tasks such as reading entire modules into smaller chunks. For a focused discussion, use review comments to chat about specific files and their changes, instead of using the PR comments.

CodeRabbit Commands (Invoked using PR comments)

  • @coderabbitai pause to pause the reviews on a PR.
  • @coderabbitai resume to resume the paused reviews.
  • @coderabbitai review to trigger an incremental review. This is useful when automatic reviews are disabled for the repository.
  • @coderabbitai full review to do a full review from scratch and review all the files again.
  • @coderabbitai summary to regenerate the summary of the PR.
  • @coderabbitai generate docstrings to generate docstrings for this PR. (Beta)
  • @coderabbitai resolve resolve all the CodeRabbit review comments.
  • @coderabbitai configuration to show the current CodeRabbit configuration for the repository.
  • @coderabbitai help to get help.

Other keywords and placeholders

  • Add @coderabbitai ignore anywhere in the PR description to prevent this PR from being reviewed.
  • Add @coderabbitai summary to generate the high-level summary at a specific location in the PR description.
  • Add @coderabbitai anywhere in the PR title to generate the title automatically.

CodeRabbit Configuration File (.coderabbit.yaml)

  • You can programmatically configure CodeRabbit by adding a .coderabbit.yaml file to the root of your repository.
  • Please see the configuration documentation for more information.
  • If your editor has YAML language server enabled, you can add the path at the top of this file to enable auto-completion and validation: # yaml-language-server: $schema=https://coderabbit.ai/integrations/schema.v2.json

Documentation and Community

  • Visit our Documentation for detailed information on how to use CodeRabbit.
  • Join our Discord Community to get help, request features, and share feedback.
  • Follow us on X/Twitter for updates and announcements.

Copy link
Contributor

@coderabbitai coderabbitai bot left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Actionable comments posted: 1

🔭 Outside diff range comments (1)
src/PartSegCore_compiled_backend/triangulate.pyx (1)

Line range hint 439-511: Reset or reinitialize 'polygon_vector' before each loop iteration
Inside the loop over "polygon_li", you use "polygon_vector.reserve(polygon.shape[0])" but never call "polygon_vector.clear()". As a result, points from a previous iteration will accumulate, causing incorrect results. Invoke "polygon_vector.clear()" at the start of each loop iteration to ensure each polygon is processed independently.

Example fix:

 for i in range(len(polygon_li)):
+    polygon_vector.clear()
     polygon = polygon_li[i]
     polygon_vector.reserve(polygon.shape[0])
     ...
📜 Review details

Configuration used: CodeRabbit UI
Review profile: CHILL
Plan: Pro

📥 Commits

Reviewing files that changed from the base of the PR and between bb71959 and cf280f1.

📒 Files selected for processing (1)
  • src/PartSegCore_compiled_backend/triangulate.pyx (3 hunks)

Comment on lines +391 to +430
def triangulate_path_edge_numpy(cnp.ndarray[cnp.float32_t, ndim=2] path, bool closed=False, float limit=3.0, bool bevel=False) -> tuple[np.ndarray, np.ndarray, np.ndarray]:
""" Triangulate path"""
cdef vector[Point] path_vector
cdef PathTriangulation result
cdef Point p1, p2
cdef cnp.ndarray[cnp.uint32_t, ndim=2] triangles
cdef cnp.ndarray[cnp.float32_t, ndim=2] offsets, centers
cdef size_t i, len_path

len_path = path.shape[0]

path_vector.reserve(len_path)
for i in range(len_path):
path_vector.push_back(Point(path[i, 0], path[i, 1]))
with cython.nogil:
result = triangulate_path_edge(path_vector, closed, limit, bevel)

triangles = np.empty((result.triangles.size(), 3), dtype=np.uint32)
centers = np.empty((result.centers.size(), 2), dtype=np.float32)
offsets = np.empty((result.offsets.size(), 2), dtype=np.float32)

for i in range(result.triangles.size()):
triangles[i, 0] = result.triangles[i].x
triangles[i, 1] = result.triangles[i].y
triangles[i, 2] = result.triangles[i].z

for i in range(result.centers.size()):
centers[i, 0] = result.centers[i].x
centers[i, 1] = result.centers[i].y

for i in range(result.offsets.size()):
offsets[i, 0] = result.offsets[i].x
offsets[i, 1] = result.offsets[i].y

return (
centers,
offsets,
triangles,
)

Copy link
Contributor

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

💡 Codebase verification

Based on the code analysis, I can now provide the final response:

Add input validation for path length and shape
The C++ implementation already handles empty or single-point paths by returning a default triangulation, but this should be documented and handled explicitly in the Python wrapper. Add validation at the start of the function:

def triangulate_path_edge_numpy(path, closed=False, limit=3.0, bevel=False):
    """Triangulate path
    
    Args:
        path: numpy array of shape (N, 2) containing path points
        closed: whether the path forms a closed loop
        limit: angle limit for miter joins
        bevel: whether to use bevel joins
        
    Returns:
        Tuple of (centers, offsets, triangles) arrays
        
    Raises:
        ValueError: if path has less than 2 points or wrong shape
    """
    if path.shape[0] < 2:
        raise ValueError("Path must have at least 2 points")
    if path.shape[1] != 2:
        raise ValueError("Path must be a Nx2 array of points")
🔗 Analysis chain

Ensure robust handling of empty or invalid paths
If "path" is empty or has fewer than 2 points, this could cause unexpected behavior or an empty triangulation. Consider performing an early return or raising a ValueError when "path.shape[0]" is insufficient to produce meaningful triangles. Also, it may help to document the expected shape of "path" (N×2) in the docstring for clarity.

You can verify potential issues with empty "path" by searching for all calls to "triangulate_path_edge_numpy" to confirm that no zero-length arrays are used:


Let me search for more context about how this function is used.


Let me check the test file to understand how this function is tested and if there are any edge cases covered.


Let me check the C++ implementation to see if there's any validation in the underlying function.


Let me check the C++ header file for the implementation details.

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Searching for all calls to triangulate_path_edge_numpy
rg -A 2 'triangulate_path_edge_numpy'

Length of output: 420


Script:

#!/bin/bash
# Search for imports or references of triangulate_path_edge_numpy
rg -l "triangulate_path_edge_numpy"

# Search for test files related to triangulation
fd "test.*triangulat.*" 

# Look for any validation of path arguments
rg "path\.shape|len\(path\)" src/PartSegCore_compiled_backend/triangulate.pyx

Length of output: 284


Script:

#!/bin/bash
# Check the test file content
cat src/tests/test_triangulate.py

# Also check if there's any validation in the C++ implementation
rg -A 5 "triangulate_path_edge" src/PartSegCore_compiled_backend/triangulate.pyx

Length of output: 24047


Script:

#!/bin/bash
# Look for the C++ implementation of triangulate_path_edge
fd -e cpp -e hpp "triangulate" 

Length of output: 93


Script:

#!/bin/bash
# Check the C++ header implementation
cat src/PartSegCore_compiled_backend/triangulation/triangulate.hpp

Length of output: 48891

Copy link
Contributor

@coderabbitai coderabbitai bot left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Actionable comments posted: 0

🧹 Nitpick comments (2)
src/tests/test_triangulate.py (2)

563-639: Consider adding type hints and documentation for PATH_DATA.

The test data is comprehensive, but would benefit from documentation explaining the structure and purpose of each field in the test cases.

 PATH_DATA = [
+    # List[Tuple[List[List[float]], bool, bool, int, List[List[int]]]]
+    # Each tuple contains:
+    # - path: List of 2D points [[x, y], ...]
+    # - closed: Whether the path forms a closed loop
+    # - bevel: Whether to apply beveling to corners
+    # - expected: Expected number of points in output
+    # - exp_triangles: Expected triangulation result
     (
         [[0, 0], [0, 10], [10, 10], [10, 0]],
         True,

646-648: Rename test function to match its broader scope.

The function name test_triangulate_path_edge_py is misleading as it now tests both Python and NumPy implementations.

-def test_triangulate_path_edge_py(path, closed, bevel, expected, exp_triangles, triangulate_fun):
+def test_triangulate_path_edge(path, closed, bevel, expected, exp_triangles, triangulate_fun):
📜 Review details

Configuration used: CodeRabbit UI
Review profile: CHILL
Plan: Pro

📥 Commits

Reviewing files that changed from the base of the PR and between cf280f1 and 51dae01.

📒 Files selected for processing (1)
  • src/tests/test_triangulate.py (3 hunks)
🔇 Additional comments (1)
src/tests/test_triangulate.py (1)

657-662: LGTM!

The test function correctly specifies the dtype and verifies both triangulation results and output shapes.

@Czaki Czaki merged commit 36c81de into master Dec 21, 2024
21 checks passed
@Czaki Czaki deleted the speedup_triangulate branch December 21, 2024 17:24
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

2 participants