Add option to plotter for layer export

[jo-mueller]

This pull request introduces a new feature for exporting selected clusters to new layers, refactors the color application logic for layers, and adds comprehensive test coverage for the new functionality. It also includes utility functions for creating test data across multiple layer types.

New Feature: Cluster Export

• Added a context menu (QMenu) to the plotting widget that allows users to export selected clusters to new layers. The _on_export_clusters method handles the export process, creating a new layer with the selected cluster's data and features. (src/napari_clusters_plotter/_new_plotter_widget.py, [1] [2]

Refactoring: Layer Color Application

• Simplified the _apply_layer_color function by replacing the dictionary-based approach with direct conditional checks for layer types. This improves readability and maintainability. (src/napari_clusters_plotter/_new_plotter_widget.py, src/napari_clusters_plotter/_new_plotter_widget.pyL452-R569)

Test Coverage: Cluster Export

• Added test cases to validate the cluster export functionality for Points and Shapes layers. Tests ensure the correct data and features are transferred to the new layer. (src/napari_clusters_plotter/_tests/test_plotter.py, src/napari_clusters_plotter/_tests/test_plotter.pyL74-R231)

Utility Functions: Test Data Creation

• Introduced utility functions (create_points, create_shapes, create_labels) for generating test data across multiple layer types (Points, Shapes, Labels) with random features and geometries. These functions support robust testing of layer-related operations. (src/napari_clusters_plotter/_tests/test_plotter.py, src/napari_clusters_plotter/_tests/test_plotter.pyR2-L6)

Code Enhancement: Context Menu Integration

• Imported QMenu from qtpy.QtWidgets to enable context menu functionality in the plotting widget. (src/napari_clusters_plotter/_new_plotter_widget.py, src/napari_clusters_plotter/_new_plotter_widget.pyL14-R14)

[Copilot]

Pull Request Overview

This PR adds a context menu for exporting clusters to new layers, refactors layer identification and color application to use unique_id, and broadens test coverage with new utilities for multiple layer types.

• Introduces a right-click context menu (QMenu) and _on_export_clusters for exporting clusters.
• Refactors feature aggregation and color application to match layers by unique_id instead of name.
• Expands tests with utility functions (create_points, create_shapes, create_labels) and parametrized cluster export tests.

Reviewed Changes

Copilot reviewed 6 out of 6 changed files in this pull request and generated 2 comments.

Show a summary per file

File	Description
src/napari_clusters_plotter/_tests/test_plotter.py	Adds utilities and tests for creating and exporting clusters
src/napari_clusters_plotter/_tests/test_dimensionality_reduction.py	Updates tests to assert against unique_id instead of name
src/napari_clusters_plotter/_new_plotter_widget.py	Adds context menu, export logic, and refactors color logic
src/napari_clusters_plotter/_dim_reduction_and_clustering.py	Updates clustering output handling to use unique_id
src/napari_clusters_plotter/_algorithm_widget.py	Changes feature tagging to use unique_id

Comments suppressed due to low confidence (4)

src/napari_clusters_plotter/_tests/test_plotter.py:9

• The function parameter loc is immediately overwritten by loc = 5, so callers cannot customize the location. Remove the hardcoded assignment or use the passed-in parameter.

loc = 5

src/napari_clusters_plotter/_tests/test_plotter.py:166

• This function uses Points but from napari.layers import Points was removed. Re-add the import to avoid a NameError.

def create_multi_point_layer(n_samples: int = 100):

src/napari_clusters_plotter/_new_plotter_widget.py:801

• The docstring declares subcluster_index as str, but the parameter is used as an int. Update the type in the docstring to int for accuracy.

    subcluster_index : str

src/napari_clusters_plotter/_tests/test_plotter.py:441

• The parameter create_multi_shapes_layers does not match the actual helper name create_multi_shapes_layer. This will cause a NameError in the parametrization.

        create_multi_shapes_layers,

[codecov]

Codecov Report

Attention: Patch coverage is 62.30769% with 49 lines in your changes missing coverage. Please review.

Project coverage is 85.57%. Comparing base (d2c94fa) to head (cf870d8).
Report is 70 commits behind head on main.

Files with missing lines	Patch %	Lines
src/napari_clusters_plotter/_tests/test_plotter.py	37.50%	40 Missing ⚠️
src/napari_clusters_plotter/_new_plotter_widget.py	85.71%	9 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #420      +/-   ##
==========================================
- Coverage   88.19%   85.57%   -2.62%     
==========================================
  Files          11       11              
  Lines        1084     1206     +122     
==========================================
+ Hits          956     1032      +76     
- Misses        128      174      +46     

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