Test microstructure and -tiles #457
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WalkthroughThe changes encompass a series of updates across multiple files in the Changes
Sequence Diagram(s)sequenceDiagram
participant User
participant TileClass
participant ParameterManager
User->>TileClass: create_tile(parameters)
TileClass->>ParameterManager: validate_parameters(parameters)
ParameterManager-->>TileClass: parameters_validated
TileClass->>User: return created_tile
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Actionable comments posted: 0
Review details
Configuration used: CodeRabbit UI
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Files selected for processing (16)
- examples/show_microstructures.py (2 hunks)
- splinepy/microstructure/microstructure.py (2 hunks)
- splinepy/microstructure/tiles/init.py (2 hunks)
- splinepy/microstructure/tiles/chi.py (2 hunks)
- splinepy/microstructure/tiles/cross_2d.py (2 hunks)
- splinepy/microstructure/tiles/cross_3d.py (2 hunks)
- splinepy/microstructure/tiles/cross_3d_linear.py (1 hunks)
- splinepy/microstructure/tiles/cube_void.py (2 hunks)
- splinepy/microstructure/tiles/double_lattice.py (2 hunks)
- splinepy/microstructure/tiles/ellips_v_oid.py (1 hunks)
- splinepy/microstructure/tiles/hollow_cube.py (2 hunks)
- splinepy/microstructure/tiles/hollow_octagon.py (4 hunks)
- splinepy/microstructure/tiles/hollow_octagon_extrude.py (2 hunks)
- splinepy/microstructure/tiles/inverse_cross_3d.py (33 hunks)
- splinepy/microstructure/tiles/snappy.py (5 hunks)
- tests/test_microstructure.py (1 hunks)
Additional comments not posted (79)
splinepy/microstructure/tiles/__init__.py (2)
11-11: LGTM!The addition of
cross_3dto the import statements is correct and consistent with the other imports.
46-46: LGTM!The addition of
cross_3dto the exported module list is correct and consistent with the other exports.splinepy/microstructure/tiles/chi.py (7)
19-19: LGTM!The change in
_evaluation_pointsfrom_np.array([[0.5, 0.5]])to_np.array([[0.5]])is correct and consistent with the rest of the class.
21-21: LGTM!The addition of
_sensitivities_implementedasTrueis correct and indicates that sensitivity analysis features are now supported within this class.
22-22: LGTM!The addition of
_parameter_boundsas[[ -_np.pi / 2, _np.pi / 2 ]]is correct and provides explicit limits for the parameters.
23-23: LGTM!The addition of
_parameters_shapeas(1, 1)is correct and aids in maintaining consistency in parameter handling throughout the class.
54-63: LGTM!The modification of the
create_tilemethod to incorporateangle_boundsfrom_parameter_boundsenhances maintainability and clarity by centralizing the bounds in a single attribute.
59-63: LGTM!The improved error message in the
create_tilemethod dynamically incorporates the actual bounds fromangle_bounds, providing more informative feedback to the user.
54-63: LGTM!The overall changes in the
create_tilemethod reflect a shift towards a more structured and maintainable approach to parameter management and validation.splinepy/microstructure/tiles/cube_void.py (5)
28-28: LGTM!The addition of
_sensitivities_implementedasTrueis correct and indicates that sensitivity analysis features are now supported within this class.
31-36: LGTM!The addition of
_parameter_boundsas[[0.0, 1.0], [0.0, 1.0], [-_np.pi / 2, _np.pi / 2], [-_np.pi / 2, _np.pi / 2]]is correct and provides explicit limits for the parameters.
37-37: LGTM!The addition of
_parameters_shapeas(1, 4)is correct and aids in maintaining consistency in parameter handling throughout the class.
104-106: LGTM!The modification of the
create_tilemethod to incorporate_parameters_shapefor default initialization ofparametersenhances flexibility and maintainability by utilizing_parameters_shapeinstead of hardcoding the shape directly.
104-106: LGTM!The overall changes in the
create_tilemethod reflect a shift towards a more robust and flexible design, facilitating better parameter management.examples/show_microstructures.py (3)
349-349: LGTM!The parameter name "seperator_distance" has been corrected to "separator_distance". This change improves clarity and consistency in the codebase.
355-355: LGTM!The parameter name "seperator_distance" has been corrected to "separator_distance". This change improves clarity and consistency in the codebase.
368-368: LGTM!The parameter name "seperator_distance" has been corrected to "separator_distance". This change improves clarity and consistency in the codebase.
splinepy/microstructure/tiles/double_lattice.py (4)
23-23: LGTM!The attribute
_sensitivities_implementedhas been added to theDoubleLatticeclass. This indicates that sensitivity analysis features are now supported within the class.
24-24: LGTM!The attribute
_parameter_boundshas been added to theDoubleLatticeclass. This specifies the bounds for parameters used in the double lattice calculations.
25-25: LGTM!The attribute
_parameters_shapehas been added to theDoubleLatticeclass. This defines the expected shape of the parameters used in the class.
50-50: LGTM!The docstring of the
create_tilemethod has been modified for clarity. This improves the clarity and grammatical accuracy of the documentation.tests/test_microstructure.py (7)
1-10: LGTM!The imports and constants are necessary for the tests.
19-26: LGTM!The function
check_control_pointscorrectly checks if all control points lie within the unit square/cube.
29-46: LGTM!The function
make_bounds_feasiblecorrectly converts bounds to an open set.
49-97: LGTM!The function
test_tile_classcorrectly checks if all tile classes have the appropriate members and functions.
99-129: LGTM!The function
test_tile_boundscorrectly tests if the tile is still in the unit cube at the bounds.
132-177: LGTM!The function
test_tile_closurecorrectly checks if closing tiles also lie in the unit cube.
179-281: LGTM!The function
test_tile_derivativescorrectly tests the correctness of the tile derivatives using Finite Differences.splinepy/microstructure/tiles/hollow_cube.py (4)
31-31: LGTM!The
_sensitivities_implementedattribute is correctly added to indicate that sensitivity analysis is supported.
32-32: LGTM!The
_parameter_boundsattribute is correctly added to define the valid range for parameters.
33-33: LGTM!The
_parameters_shapeattribute is correctly added to specify the expected shape of the parameters.
71-72: LGTM!The parameter validation logic has been correctly streamlined to use a single condition with NumPy's array operations.
splinepy/microstructure/tiles/ellips_v_oid.py (3)
30-30: LGTM!The
_sensitivities_implementedattribute is correctly added to indicate that sensitivity analysis is supported.
34-39: LGTM!The
_parameter_boundsattribute is correctly added to define the valid range for parameters.
40-40: LGTM!The
_parameters_shapeattribute is correctly added to specify the expected shape of the parameters.splinepy/microstructure/tiles/snappy.py (6)
23-23: LGTM!The
_sensitivities_implementedattribute is correctly added to indicate that sensitivity analysis is supported.
24-24: LGTM!The
_closure_directionsattribute is correctly added to define the closure directions.
25-25: LGTM!The
_parameter_boundsattribute is correctly added to define the valid range for parameters.
26-26: LGTM!The
_parameters_shapeattribute is correctly added to specify the expected shape of the parameters.
68-70: LGTM!The logic has been correctly adjusted to conditionally check parameters only if they are not
None.
371-371: Fix the typo in the error message.The error message for unimplemented parameterization has been corrected from "Parametriazation" to "Parametrization."
Apply this diff to fix the typo in the error message:
- "Parametriazation is not implemented for this tile yet" + "Parametrization is not implemented for this tile yet"Likely invalid or redundant comment.
splinepy/microstructure/tiles/cross_2d.py (5)
29-29: LGTM!The addition of
_sensitivities_implementedattribute is clear and indicates that sensitivity analysis features are now supported.
30-30: LGTM!The addition of
_closure_directionsattribute enhances the configurability of the tile's behavior in a two-dimensional space.
31-33: LGTM!The addition of
_parameter_boundsattribute ensures that the parameters are constrained to a specific range, improving robustness.
34-34: LGTM!The addition of
_parameters_shapeattribute facilitates validation and error checking.
427-428: LGTM!The updated error message provides clearer guidance on the acceptable range for the
center_expansionparameter.splinepy/microstructure/tiles/hollow_octagon_extrude.py (11)
21-21: LGTM!The addition of
_sensitivities_implementedattribute is clear and indicates that sensitivity analysis features are now supported.
23-23: LGTM!The addition of
_closure_directionsattribute enhances the configurability of the tile's behavior in a three-dimensional space.
24-24: LGTM!The addition of
_parameter_boundsattribute ensures that the parameters are constrained to a specific range, improving robustness.
25-25: LGTM!The addition of
_parameters_shapeattribute facilitates validation and error checking.
74-78: LGTM!The handling of
parameter_sensitivitiesincreate_tilemethod now allows the method to process sensitivity information, enhancing its flexibility and usability.
84-87: LGTM!The validation for the
v_h_voidparameter has been modified to allow a lower bound of 0.0 instead of 0.01, broadening the acceptable range for this parameter.
89-245: LGTM!The logic for generating spline control points in
create_tilemethod now constructs control points for splines in a loop that iterates over the number of derivatives, allowing for the creation of derivative-specific splines.
247-247: LGTM!The return statement of
create_tilemethod now returns both the primary splines and the derivatives, providing a more comprehensive output.
249-249: LGTM!The renaming of
closing_tilemethod to_closing_tileclarifies the intended usage context of the method.
76-80: LGTM!The handling of
parameter_sensitivitiesin_closing_tilemethod now allows the method to process sensitivity information, enhancing its flexibility and usability.
83-87: LGTM!The validation for the
v_h_voidparameter has been modified to allow a lower bound of 0.0 instead of 0.01, broadening the acceptable range for this parameter.splinepy/microstructure/tiles/hollow_octagon.py (8)
21-21: LGTM!The addition of
_sensitivities_implementedattribute is clear and indicates that sensitivity analysis features are now supported.
22-22: LGTM!The addition of
_closure_directionsattribute enhances the configurability of the tile's behavior in a two-dimensional space.
23-23: LGTM!The addition of
_parameter_boundsattribute ensures that the parameters are constrained to a specific range, improving robustness.
24-24: LGTM!The addition of
_parameters_shapeattribute facilitates validation and error checking.
76-80: LGTM!The handling of
parameter_sensitivitiesin_closing_tilemethod now allows the method to process sensitivity information, enhancing its flexibility and usability.
83-87: LGTM!The validation for the
v_h_voidparameter has been modified to allow a lower bound of 0.0 instead of 0.01, broadening the acceptable range for this parameter.
89-418: LGTM!The logic for generating spline control points in
_closing_tilemethod now constructs control points for splines in a loop that iterates over the number of derivatives, allowing for the creation of derivative-specific splines.
420-420: LGTM!The return statement of
_closing_tilemethod now returns both the primary splines and the derivatives, providing a more comprehensive output.splinepy/microstructure/tiles/cross_3d_linear.py (4)
31-31: LGTM!The addition of
_sensitivities_implementedattribute is clear and indicates that the class supports sensitivity analysis.
32-32: LGTM!The addition of
_closure_directionsattribute enhances the configurability of the class by defining valid closure directions.
33-35: LGTM!The addition of
_parameter_boundsattribute ensures that the parameters used in the class are within the specified bounds, enhancing robustness.
36-36: LGTM!The addition of
_parameters_shapeattribute ensures that the parameters used in the class have the correct shape, enhancing robustness.splinepy/microstructure/tiles/cross_3d.py (5)
31-31: LGTM!The addition of
_sensitivities_implementedattribute is clear and indicates that the class supports sensitivity analysis.
32-32: LGTM!The addition of
_closure_directionsattribute enhances the configurability of the class by defining valid closure directions.
33-35: LGTM!The addition of
_parameter_boundsattribute ensures that the parameters used in the class are within the specified bounds, enhancing robustness.
36-36: LGTM!The addition of
_parameters_shapeattribute ensures that the parameters used in the class have the correct shape, enhancing robustness.
566-569: LGTM!The addition of closure validation in the
create_tilemethod enhances error handling by ensuring that only supported closure types are processed.splinepy/microstructure/microstructure.py (2)
12-12: LGTM!The correction of the class-level docstring enhances the clarity and professionalism of the documentation.
21-21: LGTM!The correction of the constructor's docstring enhances the clarity and professionalism of the documentation.
splinepy/microstructure/tiles/inverse_cross_3d.py (3)
35-39: LGTM!The class attributes are correctly defined and initialized.
893-893: LGTM! But verify the function usage in the codebase.The function is correctly implemented. However, ensure that all function calls to
create_tilematch the new signature.The code changes are approved.
Run the following script to verify the function usage:
48-48: LGTM! But verify the function usage in the codebase.The function is correctly implemented. However, ensure that all function calls to
_closing_tilematch the new signature.The code changes are approved.
Run the following script to verify the function usage:
Verification successful
Function usage is consistent with the updated signature.
The
_closing_tilefunction insplinepy/microstructure/tiles/inverse_cross_3d.pyis correctly defined and used with theseparator_distanceparameter. No issues were found regarding its usage in this context.Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Verify all function calls to `_closing_tile` match the new signature. # Test: Search for the function usage. Expect: Only occurrences of the new signature. rg --type python -A 5 $'_closing_tile'Length of output: 68
Script:
#!/bin/bash # Description: Verify all function calls to `_closing_tile` match the new signature. # Test: Search for the function usage. Expect: Only occurrences of the new signature. rg '_closing_tile' --glob '*.py' -A 5Length of output: 9016
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The current status is:
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I just checked the tests on my local laptop. My implemented tests are flaky due to the random points: most of the time, all tests pass, but sometimes there is one failing test. I think sticking to a fixed random seed might be a better idea, for replicability |
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Actionable comments posted: 18
♻️ Duplicate comments (1)
splinepy/microstructure/tiles/snappy.py (1)
71-73:⚠️ Potential issueRemove redundant parameter check.
Based on the past review comments and the fact that parameters are not implemented, this check is redundant and should be removed.
- # TODO: parameters are not implemented, therefore do not check params - if parameters is not None: - self.check_params(parameters)
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📒 Files selected for processing (11)
splinepy/microstructure/microstructure.py(5 hunks)splinepy/microstructure/tiles/chi.py(3 hunks)splinepy/microstructure/tiles/cube_void.py(3 hunks)splinepy/microstructure/tiles/ellips_v_oid.py(3 hunks)splinepy/microstructure/tiles/hollow_octagon_extrude.py(3 hunks)splinepy/microstructure/tiles/snappy.py(5 hunks)splinepy/microstructure/tiles/tile_base.py(0 hunks)tests/conftest.py(2 hunks)tests/test_knot_vectors.py(1 hunks)tests/test_microstructure.py(1 hunks)tests/test_microtiles.py(1 hunks)
💤 Files with no reviewable changes (1)
- splinepy/microstructure/tiles/tile_base.py
🔇 Additional comments (8)
splinepy/microstructure/tiles/hollow_octagon_extrude.py (1)
75-80: Verify the dimensions ofparameter_sensitivities.Accessing
parameter_sensitivities.shape[2]assumes thatparameter_sensitivitiesis at least three-dimensional. Ensure that the input array has the expected dimensions to prevent potentialIndexError.tests/test_knot_vectors.py (1)
32-32: Update assertion to use.numpy()method onspl_kv.The change correctly accesses the NumPy array representation of
spl_kvusing.numpy(), ensuring the assertion compares the correct data structures.splinepy/microstructure/tiles/cube_void.py (1)
28-37: 🧹 Nitpick (assertive)Address the TODO comment about parameter bounds.
The TODO comment indicates that parameter bounds and checks need improvement to ensure the parametrization lies within the unit cube.
Do you want me to help implement smarter parameter bounds and validation checks?
tests/conftest.py (1)
18-18: LGTM! Fixed seed ensures reproducible tests.Using a fixed seed for the random number generator addresses the test flakiness concerns and ensures reproducible test results.
splinepy/microstructure/tiles/ellips_v_oid.py (2)
97-97: Verify the rotation matrix derivative implementation.The change in the y-axis rotation matrix derivative needs verification to ensure mathematical correctness.
Let's verify this against other implementations:
✅ Verification successful
The y-axis rotation matrix derivative implementation is mathematically correct.
The implementation correctly represents the derivative of the y-axis rotation matrix with respect to the angle, where:
- The original rotation matrix entries cos(θ) are correctly differentiated to -sin(θ)
- The original rotation matrix entries sin(θ) are correctly differentiated to cos(θ)
- The implementation is consistent across multiple files in the codebase
🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Find other rotation matrix implementations for comparison # Search for other rotation matrix implementations ast-grep --pattern $'def _rotation_matrix_.*_deriv\(.*\).*: $$$ return.*'Length of output: 78
Script:
#!/bin/bash # Search for rotation-related implementations and tests rg -l "rotation" --type py rg "rotation.*matrix" -A 5 -B 5 --type pyLength of output: 14401
33-43: Verify parameter bounds for ellipsoid containment.The parameter bounds need verification to ensure they're sufficient for keeping the ellipsoid within the unit cube. The TODO comment indicates this is still an open issue.
Let's analyze the parameter space:
✅ Verification successful
Parameter bounds are correct but control points may exceed unit cube bounds
The parameter bounds ([0,1] for radii, [-π/2,π/2] for rotations) are mathematically correct for the ellipsoid transformation. However, as documented in the code, while these bounds ensure the final geometry stays within the unit cube, the control points may still lie outside it. This is a known limitation that's already being tracked.
🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Find all instances where these parameter bounds are used to verify containment # Search for parameter validation rg -A 5 "_parameter_bounds.*\[.*0\.0.*1\.0" # Search for related tests rg -A 10 "test.*ellips.*bound"Length of output: 78
Script:
#!/bin/bash # Find the complete class implementation ast-grep --pattern 'class $_ { $$$ _parameter_bounds = [ $$$ ] $$$ }' # Search for ellipsoid tests and implementations rg -l "ellips.*v.*oid" # Search for parameter validation rg -B 5 -A 10 "def validate.*param"Length of output: 234
Script:
#!/bin/bash # View the implementation file cat splinepy/microstructure/tiles/ellips_v_oid.py # Search for tests with different patterns rg -l "test.*ellips" rg -l "test.*void" # Search for parameter usage rg -A 5 "def.*param" splinepy/microstructure/tiles/ellips_v_oid.pyLength of output: 12775
splinepy/microstructure/microstructure.py (2)
430-431: LGTM! Default parameter values updated.The default values for
knot_span_wiseandmacro_sensitivitiesare now explicitly set to their most common use case.
458-463: LGTM! Added type validation for boolean parameters.The new assertions improve parameter validation by ensuring boolean types.
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Actionable comments posted: 17
🔭 Outside diff range comments (1)
splinepy/microstructure/tiles/chi.py (1)
Line range hint
96-96: Correct the typo in the method namesensitivites_implemented.The method name
sensitivites_implementedhas a typo; it should besensitivities_implemented. This will prevent correct property access and may lead to attribute errors.Apply this diff to fix the typo:
- def sensitivites_implemented(cls): + def sensitivities_implemented(cls):
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📒 Files selected for processing (15)
splinepy/microstructure/tiles/chi.py(3 hunks)splinepy/microstructure/tiles/cross_2d.py(3 hunks)splinepy/microstructure/tiles/cross_3d.py(3 hunks)splinepy/microstructure/tiles/cross_3d_linear.py(3 hunks)splinepy/microstructure/tiles/cube_void.py(3 hunks)splinepy/microstructure/tiles/double_lattice.py(2 hunks)splinepy/microstructure/tiles/ellips_v_oid.py(4 hunks)splinepy/microstructure/tiles/hollow_cube.py(2 hunks)splinepy/microstructure/tiles/hollow_octagon.py(5 hunks)splinepy/microstructure/tiles/hollow_octagon_extrude.py(3 hunks)splinepy/microstructure/tiles/snappy.py(6 hunks)splinepy/microstructure/tiles/tile_base.py(5 hunks)tests/conftest.py(2 hunks)tests/test_microstructure.py(1 hunks)tests/test_microtiles.py(1 hunks)
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📓 Learnings (7)
splinepy/microstructure/tiles/snappy.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/snappy.py:26-29
Timestamp: 2025-01-16T16:38:32.816Z
Learning: In tile classes where parameters are not implemented (like Snappy), empty parameter bounds (`_parameter_bounds = []`) and shape (`_parameters_shape = ()`) are appropriate, as there are no parameters to constrain or shape.
tests/test_microstructure.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microstructure.py:51-52
Timestamp: 2025-01-16T14:31:31.072Z
Learning: When testing closing faces in microstructure tests, boundary ID assertions are not needed as the test only uses specific boundary IDs (2 and 3) as temporary identifiers for min and max boundaries to verify surface areas.
splinepy/microstructure/tiles/hollow_octagon.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/hollow_octagon_extrude.py:94-98
Timestamp: 2025-01-16T14:27:27.307Z
Learning: Parameter bounds validation for tile parameters has been moved to the TileBase class to centralize the validation logic and reduce code duplication across individual tile classes.
splinepy/microstructure/tiles/cube_void.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cube_void.py:67-67
Timestamp: 2025-01-16T16:08:24.359Z
Learning: In the y-axis rotation matrix derivative, the middle row is [0, 0, 0] because it's the derivative of [0, 1, 0] with respect to the rotation angle. This follows from the fact that y-coordinates remain unchanged during rotation around y-axis, and the derivative of constants is zero.
splinepy/microstructure/tiles/chi.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/chi.py:86-92
Timestamp: 2025-01-16T14:27:59.957Z
Learning: In the Chi class's `create_tile` method, the calculation `dalpha * -r * _np.sin(alpha)` is structured to emphasize that it's the derivative of `r * cos(alpha)` with respect to alpha, where the negative sign placement reflects the chain rule application.
tests/test_microtiles.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microtiles.py:157-159
Timestamp: 2025-01-16T16:28:22.607Z
Learning: In splinepy's microstructure tests, $C_0$-continuity at closure boundaries is implicitly verified through surface integral tests. If the surface integral equals 1, it indicates no gaps or overlaps exist between patches at the closure boundary.
splinepy/microstructure/tiles/hollow_octagon_extrude.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/hollow_octagon_extrude.py:94-98
Timestamp: 2025-01-16T14:27:27.307Z
Learning: Parameter bounds validation for tile parameters has been moved to the TileBase class to centralize the validation logic and reduce code duplication across individual tile classes.
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🔇 Additional comments (31)
splinepy/microstructure/tiles/hollow_cube.py (1)
61-64: Ensure input validation in_process_inputmethodThe previous input handling and validation logic in
create_tilehas been replaced with a call toself._process_input. Please verify that_process_inputadequately validatesparametersandparameter_sensitivities, including checking value ranges and shapes, and raises appropriate exceptions when necessary to prevent runtime errors.splinepy/microstructure/tiles/snappy.py (3)
26-29: LGTM! Class attributes are correctly defined.The new attributes accurately reflect the current state of the class:
_sensitivities_implemented = Falsealigns with the unimplemented parameter sensitivities_closure_directionscorrectly specifies y-axis closures- Empty
_parameter_boundsand_parameters_shapeare appropriate since parameters are not implemented
356-358: LGTM! Parameter validation and error message improvements.The changes enhance the code quality:
- Added proper bounds checking for contact_length parameter
- Fixed the typo in the error message
Also applies to: 375-375
11-12: 🧹 Nitpick (assertive)Enhance TODO comment clarity.
The TODO comment could be more specific about what's needed to implement parameters and sensitivities.
- # TODO: currently the tile parameters are not implemented as the parameters variable - therefore, no parameter sensitivities are calculated + # TODO: Parameter implementation needed: + # 1. Define parameter array structure for geometric properties (a, b, c, r) + # 2. Implement parameter validation in create_tile and _closing_tile + # 3. Add parameter sensitivity calculations for optimizationLikely invalid or redundant comment.
splinepy/microstructure/tiles/cross_2d.py (5)
29-35: Initialization of new class attributes aligns with the updated parameter handling.The addition of
_sensitivities_implemented,_closure_directions,_parameter_bounds,_parameters_shape, and_default_parameter_valueenhances the class's ability to handle parameters and sensitivities consistently. These attributes are correctly defined and are consistent with the modifications made in other tile classes.
76-79: Consolidation of parameter processing using_process_inputmethod improves maintainability.Replacing the previous parameter handling logic with a call to
self._process_inputcentralizes parameter and sensitivity processing. This refactoring promotes code reuse and reduces redundancy, enhancing code clarity and maintainability.
81-86: Validation of custom parameters using_check_custom_parameterensures robustness.The use of
_check_custom_parameterforboundary_widthandfilling_heighteffectively validates custom parameters within their specified bounds. This approach standardizes parameter validation and helps prevent invalid inputs.
405-407: Correct validation ofcenter_expansionparameter enhances input reliability.Validating
center_expansionusing_check_custom_parameterensures that it falls within the acceptable range of 0.5 to 1.5. This check is crucial to prevent potential errors during tile creation due to invalid expansion factors.
409-412: Consistent use of_process_inputincreate_tilemethod standardizes parameter handling.By utilizing
self._process_inputfor parameter and sensitivity processing in thecreate_tilemethod, the code achieves consistency across methods. This enhances code maintainability and reduces the likelihood of discrepancies in parameter handling.splinepy/microstructure/tiles/double_lattice.py (3)
51-51: LGTM! Grammar fix improves clarity.The correction of "tiles boundary" to "tile's boundary" properly fixes the possessive form.
57-64: LGTM! Improved parameter validation and processing.The refactoring enhances code maintainability by:
- Centralizing parameter validation through
_check_custom_parameter- Consolidating parameter and sensitivity processing through
_process_input
57-64: Verify test coverage for parameter validation and sensitivity analysis.Given that this PR focuses on testing microstructure and microtiles, let's ensure adequate test coverage exists for:
- Parameter bounds validation
- Sensitivity derivatives calculation
- Edge cases in parameter processing
Let's check for existing tests:
✅ Verification successful
Test coverage is comprehensive and well-implemented
The codebase already includes thorough test coverage for parameter validation and sensitivity analysis:
- Parameter bounds validation is tested through base class validation
- Sensitivity derivatives are rigorously tested using finite difference validation in
test_tile_derivatives()- Integration tests verify the impact on the full microstructure
🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Check for test coverage of DoubleLattice parameter validation and sensitivity analysis # Look for test files related to DoubleLattice fd -e py -E "test.*double.*lattice.*" -E "double.*lattice.*test.*" # Search for specific test cases rg -l "DoubleLattice.*test|test.*DoubleLattice" -t py # Look for sensitivity test patterns rg "test.*sensitivity|sensitivity.*test" -t py -A 5Length of output: 3539
Script:
#!/bin/bash # Check content of microstructure test files for DoubleLattice tests rg -A 10 "DoubleLattice" tests/test_microtiles.py tests/test_microstructure.py # Check tile base class tests for parameter validation rg -A 10 "_check_custom_parameter|_process_input" tests/test_microtiles.py tests/test_microstructure.py # Look for sensitivity-related tests in microstructure files rg -A 10 "parameter_sensitivities|derivatives" tests/test_microtiles.py tests/test_microstructure.pyLength of output: 5049
tests/test_microstructure.py (1)
157-161: 🧹 Nitpick (assertive)Add shape assertions for derivatives.
Before comparing derivative values, verify that the shapes match the expected dimensions.
Apply this diff to add shape assertions:
deriv_evaluations = [ patch.evaluate(eval_points) for patch in deriv_orig.patches ] + # Verify derivative shapes + for patch_deriv in deriv_evaluations: + assert patch_deriv.shape[1] == dim, ( + f"Derivative shape mismatch. Expected {dim} dimensions, " + f"got {patch_deriv.shape[1]}" + )Likely invalid or redundant comment.
tests/conftest.py (3)
18-18: LGTM! Good choice using a fixed seed.Using a fixed seed (0) for the random number generator ensures test reproducibility.
44-55: LGTM! Well-documented trade-off.The docstring clearly explains why 1e-7 was chosen as a compromise between truncation and round-off errors in finite difference calculations.
58-65: 🧹 Nitpick (assertive)Improve docstring to explain the trade-off.
The docstring could better explain why 10 test points were chosen.
Apply this diff to improve the docstring:
""" Number of random testing points (in parametric domain) - The number 10 is arbitrary and should ensure to have good test coverage + The value 10 is chosen as a balance between: + - Having enough points to ensure good test coverage + - Keeping test execution time reasonable """Likely invalid or redundant comment.
tests/test_microtiles.py (1)
120-121: 🧹 Nitpick (assertive)Add logging for skipped tiles.
Consider adding logging to track which tile classes are being skipped.
Apply this diff to add logging:
if tile_class in skip_tiles: + print(f"Skipping bounds test for {tile_class.__name__} as it's known to fail") returnLikely invalid or redundant comment.
splinepy/microstructure/tiles/chi.py (1)
19-24: Verify the change in_evaluation_pointsdimensionality.The
_evaluation_pointsattribute has been changed from a 2D array[[0.5, 0.5]]to a 1D array[[0.5]]. Please ensure that this change aligns with the expected dimensionality for this tile and that dependent methods handle this change correctly to prevent any unintended side effects.splinepy/microstructure/tiles/tile_base.py (2)
198-200: 🛠️ Refactor suggestionClarify parameter bounds inclusivity and adjust comparisons if necessary.
The parameter bounds are currently checked using exclusive comparisons (
>and<). If parameters equal to the bounds should be considered valid, please use inclusive comparisons (>=and<=). This will ensure that boundary values are correctly accepted or rejected as intended.Apply this diff to adjust the comparisons:
- within_bounds = (parameters.ravel() > lower_bounds) & ( - parameters.ravel() < upper_bounds + within_bounds = (parameters.ravel() >= lower_bounds) & ( + parameters.ravel() <= upper_bounds )
325-328: 🧹 Nitpick (assertive)Ensure parameter bounds check is consistent with expected inclusivity.
The current check for custom parameters uses exclusive bounds:
if not ((value > min_bound) and (value < max_bound)):If parameters equal to
min_boundormax_boundare acceptable, consider using inclusive comparisons (>=and<=) to accurately reflect the valid range.Apply this diff to adjust the condition:
- if not ((value > min_bound) and (value < max_bound)): + if not ((value >= min_bound) and (value <= max_bound)):splinepy/microstructure/tiles/ellips_v_oid.py (2)
98-98: Confirm the correction in_rotation_matrix_y_deriv.The return statement in
_rotation_matrix_y_derivhas been changed, updating the middle row from[0, 1, 0]to[0, 0, 0]. This aligns with the mathematical derivative of the rotation matrix around the y-axis. Please confirm that this change is intentional and that it correctly affects derivative calculations.
Line range hint
325-328: Ensure parameter bounds check reflects intended inclusivity.The check for parameter bounds currently uses exclusive comparisons:
if not ((value > min_bound) and (value < max_bound)):If the boundary values are valid, please adjust to inclusive comparisons (
>=and<=).Apply this diff to adjust the condition:
- if not ((value > min_bound) and (value < max_bound)): + if not ((value >= min_bound) and (value <= max_bound)):splinepy/microstructure/tiles/hollow_octagon.py (2)
21-25: Class attributes initialization is appropriateThe addition of
_sensitivities_implemented,_closure_directions,_parameter_bounds,_parameters_shape, and_default_parameter_valueenhances the configurability and consistency of theHollowOctagonclass.
59-62: Use of_process_inputmethod improves parameter handlingImplementing the
_process_inputmethod for processing parameters and sensitivities centralizes input validation and reduces code duplication.splinepy/microstructure/tiles/hollow_octagon_extrude.py (3)
21-25: Class attributes added correctlyThe new class attributes
_sensitivities_implemented,_closure_directions,_parameter_bounds,_parameters_shape, and_default_parameter_valueenhance the tile's flexibility and align with standard practices.
32-32: Addition ofclosureparameter tocreate_tilemethodIncluding the
closureparameter in thecreate_tilemethod signature allows for more versatile tile creation and supports closure handling.
59-65: Parameter checks and input processing are well-implementedUsing
_check_custom_parameterforcontact_lengthvalidation and_process_inputfor parameter handling improves code maintainability and consistency across tile classes.splinepy/microstructure/tiles/cube_void.py (3)
28-38: Enhancement of parameter configuration with new class attributesThe addition of
_sensitivities_implemented,_parameter_bounds,_parameters_shape, and_default_parameter_valueimproves configurability and aligns theCubeVoidclass with other tile classes.
68-68: Correct computation of the rotation matrix derivativeThe update to the
_rotation_matrix_y_derivmethod accurately reflects the derivative of the rotation matrix around the y-axis. The second row being[0, 0, 0]correctly represents the zero derivative of constants.
105-108: Utilization of_process_inputfor parameter handlingEmploying the
_process_inputmethod for parameters and sensitivities streamlines input processing and enhances code consistency with other tile classes.splinepy/microstructure/tiles/cross_3d.py (1)
531-534: LGTM! Improved closure validation.The explicit validation against
_closure_directionsimproves code robustness and provides a clearer error message.
| _sensitivities_implemented = True | ||
| _parameter_bounds = [[0.0, 1 / (2 * (1 + _np.sqrt(2)))]] * 2 | ||
| _parameters_shape = (1, 2) | ||
| _default_parameter_value = 0.1 |
There was a problem hiding this comment.
🧹 Nitpick (assertive)
LGTM! Consider documenting the parameter bounds formula.
The new class attributes effectively support sensitivity analysis and parameter validation. However, the mathematical formula used for parameter bounds (1 / (2 * (1 + _np.sqrt(2)))) would benefit from a brief explanation of its derivation and significance.
Consider adding a comment explaining how this bound was derived and why it's critical for the double lattice structure.
There was a problem hiding this comment.
@mkofler96 do you have any idea, why the bounds of the parameters are set to this value? If so and you want to, can you add the formula for it? If not, we can probably leave it for now.
There was a problem hiding this comment.
Seems like the humans are having a chat. I'll hop back into my burrow for now. If you need me again, just tag @coderabbitai in a new comment, and I'll come hopping out!
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Actionable comments posted: 17
♻️ Duplicate comments (3)
splinepy/microstructure/tiles/double_lattice.py (1)
24-24: 🧹 Nitpick (assertive)Consider documenting the derivation of
_parameter_boundsThe parameter bounds are set using the formula
1 / (2 * (1 + _np.sqrt(2))). Adding a comment to explain the derivation and significance of this formula would enhance code readability and assist future maintainers.splinepy/microstructure/tiles/hollow_octagon.py (1)
69-399: 🧹 Nitpick (assertive)Consider further refactoring to eliminate code duplication.
The loops and computations within the
_closing_tileandcreate_tilemethods share considerable code. Even after moving some logic toTileBase, there is still duplicated code between these methods. Consider extracting shared logic into additional helper methods to further reduce duplication and enhance maintainability.Also applies to: 455-565
splinepy/microstructure/tiles/hollow_octagon_extrude.py (1)
81-239: 🧹 Nitpick (assertive)Consider refactoring duplicated code between
create_tileand_closing_tile.The
_closing_tileandcreate_tilemethods have substantial code duplication in the loops and computations for generating splines. To improve maintainability, consider extracting shared logic into helper methods, possibly in theTileBaseclass or within this class.Also applies to: 284-1254
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📒 Files selected for processing (10)
splinepy/microstructure/tiles/cross_2d.py(3 hunks)splinepy/microstructure/tiles/cross_3d.py(3 hunks)splinepy/microstructure/tiles/cross_3d_linear.py(3 hunks)splinepy/microstructure/tiles/double_lattice.py(2 hunks)splinepy/microstructure/tiles/hollow_octagon.py(5 hunks)splinepy/microstructure/tiles/hollow_octagon_extrude.py(3 hunks)splinepy/microstructure/tiles/snappy.py(6 hunks)splinepy/microstructure/tiles/tile_base.py(5 hunks)tests/test_microstructure.py(1 hunks)tests/test_microtiles.py(1 hunks)
🧰 Additional context used
📓 Learnings (9)
tests/test_microstructure.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microstructure.py:51-52
Timestamp: 2025-01-16T14:31:31.072Z
Learning: When testing closing faces in microstructure tests, boundary ID assertions are not needed as the test only uses specific boundary IDs (2 and 3) as temporary identifiers for min and max boundaries to verify surface areas.
splinepy/microstructure/tiles/snappy.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/snappy.py:26-29
Timestamp: 2025-01-16T16:38:32.816Z
Learning: In tile classes where parameters are not implemented (like Snappy), empty parameter bounds (`_parameter_bounds = []`) and shape (`_parameters_shape = ()`) are appropriate, as there are no parameters to constrain or shape.
splinepy/microstructure/tiles/cross_2d.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
splinepy/microstructure/tiles/cross_3d.py (3)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:78-88
Timestamp: 2025-01-17T16:30:34.847Z
Learning: In splinepy's microstructure module, validation logic for tile parameters should be kept within individual tile classes rather than being moved to TileBase, as each tile can have different validation requirements.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
splinepy/microstructure/tiles/cross_3d_linear.py (2)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
tests/test_microtiles.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microtiles.py:157-159
Timestamp: 2025-01-16T16:28:22.607Z
Learning: In splinepy's microstructure tests, $C_0$-continuity at closure boundaries is implicitly verified through surface integral tests. If the surface integral equals 1, it indicates no gaps or overlaps exist between patches at the closure boundary.
splinepy/microstructure/tiles/hollow_octagon_extrude.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/hollow_octagon_extrude.py:94-98
Timestamp: 2025-01-16T14:27:27.307Z
Learning: Parameter bounds validation for tile parameters has been moved to the TileBase class to centralize the validation logic and reduce code duplication across individual tile classes.
splinepy/microstructure/tiles/hollow_octagon.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/hollow_octagon_extrude.py:94-98
Timestamp: 2025-01-16T14:27:27.307Z
Learning: Parameter bounds validation for tile parameters has been moved to the TileBase class to centralize the validation logic and reduce code duplication across individual tile classes.
splinepy/microstructure/tiles/tile_base.py (3)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:281-293
Timestamp: 2025-01-17T16:15:44.885Z
Learning: In splinepy's TileBase, parameter shape validation is handled through two mechanisms:
1. Test-time validation of default_parameter_value dimensions in test_microtiles.py
2. Runtime validation of final parameter shape in TileBase.check_params()
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:281-293
Timestamp: 2025-01-17T16:15:44.885Z
Learning: Parameter shape validation in splinepy's TileBase is implemented through multiple layers:
1. Class-level validation in test_tile_class ensures _parameters_shape exists and is a tuple
2. Runtime validation in TileBase.check_params() verifies parameter dimensions match (evaluation_points.shape[0], n_info_per_eval_point)
3. Comprehensive testing in test_tile_bounds validates both default and boundary parameter cases
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🔇 Additional comments (30)
splinepy/microstructure/tiles/snappy.py (7)
26-29: Class attributes are correctly defined.The empty parameter bounds and shape are appropriate since parameters are not implemented in this tile class, as confirmed by the retrieved learning from markriegler.
31-31: Verify contact length bounds.The contact length bounds of [0.0, 0.49] need verification against the geometric constraints:
- Must be positive (validated in create_tile)
- Must satisfy
r + contact_length < 0.5(validated in create_tile)
302-303: Return statement is correctly positioned.The return statement is now outside the conditional block, ensuring it always returns a tuple of (spline_list, None), which is consistent with the method's contract.
356-358: Parameter validation is properly encapsulated.The contact length validation has been moved to a dedicated method, improving code organization and reusability.
375-375: Fixed typo in error message.The error message now correctly spells "Parametrization" instead of "Parametriazation".
73-73: 🧹 Nitpick (assertive)Remove redundant TODO comment.
The TODO comment about not checking parameters is redundant since:
- Parameters are already documented as not implemented in the class docstring
- The code no longer performs parameter validation at this point
- # TODO: parameters are not implemented, therefore do not check paramsLikely invalid or redundant comment.
11-12: 🧹 Nitpick (assertive)Improve TODO comment clarity.
The TODO comment should be more specific about why parameters aren't implemented and what's needed to implement them.
- # TODO: currently the tile parameters are not implemented as the parameters variable - therefore, no parameter sensitivities are calculated + # TODO: Parameters and sensitivities not implemented: + # - Parameters are not used in the tile's geometry definition + # - Consequently, parameter sensitivities cannot be calculatedLikely invalid or redundant comment.
splinepy/microstructure/tiles/double_lattice.py (3)
23-28: Addition of new class attributes enhances parameter handlingThe introduction of
_sensitivities_implemented,_parameter_bounds,_parameters_shape,_default_parameter_value, and_CONTACT_LENGTH_BOUNDSimproves the class's ability to handle sensitivities and parameter validations effectively.
59-61: Proper validation ofcontact_lengthparameterUsing
self._check_custom_parameterto validatecontact_lengthagainst_CONTACT_LENGTH_BOUNDSensures that thecontact_lengthstays within the intended bounds of[0.0, 1.0]. This enhances input validation and robustness of the method.
63-66: Refactored parameter processing improves code maintainabilityThe use of
_process_inputto handleparametersandparameter_sensitivitiesstreamlines the input processing and maintains consistent parameter handling across different tile classes. This refactoring improves code modularity and readability.splinepy/microstructure/tiles/cross_3d_linear.py (5)
31-37: Consider adding docstrings for the new class attributesThe new class attributes
_sensitivities_implemented,_closure_directions,_parameter_bounds,_parameters_shape, and_default_parameter_valuehave been added. Including docstrings for these attributes would enhance code readability and help other developers understand their purpose and usage.
39-41: Good job extracting parameter bounds as class constantsExtracting
_BOUNDARY_WIDTH_BOUNDS,_FILLING_HEIGHT_BOUNDS, and_CENTER_EXPANSION_BOUNDSas class constants improves code maintainability and makes it easier to manage and update parameter constraints.
82-85: Refactored input processing enhances code maintainabilityBy utilizing
_process_inputto handleparametersandparameter_sensitivities, the code reduces redundancy and centralizes input validation, which improves maintainability and readability.
87-92: Parameter validation is well-structuredThe use of
_check_custom_parameteralong with class constants for bounds in_closing_tilemethod streamlines parameter validation and ensures consistency across the codebase.
473-475: Parameter validation is well-structuredThe refactoring in the
create_tilemethod enhances code maintainability by centralizing parameter validation using_check_custom_parameterand class constants for bounds.splinepy/microstructure/tiles/cross_2d.py (3)
85-90: Validation of Custom Parameters is Correct and ConsistentThe use of
_check_custom_parameterto validateboundary_widthandfilling_heightagainst their respective bounds is appropriate and ensures that the custom parameters are within valid ranges.
80-83: Consistent Use of_process_inputfor Parameter HandlingThe refactoring to use
_process_inputfor handlingparametersandparameter_sensitivitiesin both_closing_tileandcreate_tilemethods enhances code clarity and reduces redundancy.Also applies to: 413-416
37-39: Proper Definition of Parameter Bound ConstantsThe constants
_BOUNDARY_WIDTH_BOUNDS,_FILLING_HEIGHT_BOUNDS, and_CENTER_EXPANSION_BOUNDSare appropriately defined, providing clear boundaries for parameter validation.splinepy/microstructure/tiles/tile_base.py (2)
303-315: Handle default value types that are neitherfloatnornp.ndarray.In the
_process_inputmethod, whenparametersisNone, you check ifdefault_valueis an instance offloatornp.ndarray. If it's neither, the code does not handle this case, which could lead to unexpected errors.Consider adding an
elseclause to handle unsupporteddefault_valuetypes or raise an appropriate error to inform users about acceptable types.
220-223: Ensure proper broadcasting when checking parameter bounds.In
check_params, when verifying if parameters are within bounds, you're comparingparameters.ravel()withlower_boundsandupper_bounds. Ensure that the shapes of these arrays are compatible for element-wise comparison to avoid broadcasting issues.Please confirm that
parameters.ravel()andlower_boundshave compatible shapes or adjust the comparison to correctly handle differing shapes.splinepy/microstructure/tiles/hollow_octagon_extrude.py (1)
61-66: Ensure consistent parameter checking usingTileBasemethods.In
create_tile, you use_check_custom_parameterto validatecontact_length. Ensure that all custom parameters, includingparameters, are validated consistently using the methods provided byTileBase.splinepy/microstructure/tiles/cross_3d.py (8)
31-37: Class attributes are appropriately defined.The new class attributes
_sensitivities_implemented,_closure_directions,_parameter_bounds,_parameters_shape, and_default_parameter_valueare correctly added and align with the class's requirements.
39-41: Bounds for custom parameters are correctly established.The definitions of
_BOUNDARY_WIDTH_BOUNDS,_FILLING_HEIGHT_BOUNDS, and_CENTER_EXPANSION_BOUNDSprovide clear constraints for parameter validation.
82-85: Consistent parameter processing with_process_input.Using
self._process_inputensures thatparametersandparameter_sensitivitiesare handled consistently, improving code maintainability.
87-92: Effective validation ofboundary_widthandfilling_height.The use of
_check_custom_parameterwith the defined bounds ensures that these parameters stay within valid ranges, enhancing robustness.
517-519: Validation ofcenter_expansionparameter.Checking
center_expansionagainst_CENTER_EXPANSION_BOUNDSvia_check_custom_parameterappropriately enforces parameter constraints.
521-524: Consistent use of_process_inputincreate_tilemethod.This maintains consistency in parameter handling across methods, which is good practice.
528-528: Validation ofparametersagainst calculatedmax_radius.By checking that
parametersdo not exceedmax_radius, the implementation prevents invalid configurations that could lead to geometric inconsistencies.
535-538: Appropriate error handling for unsupported closure directions.Raising
NotImplementedErrorwith a clear message when an unsupportedclosureis provided improves code robustness and user feedback.tests/test_microstructure.py (1)
168-169: Verify the sign convention in derivative comparisonThe assertion compares the negative of the implemented derivative to the finite difference derivative. Please verify that this negative sign is intentional and that the sign convention is consistent.
…n be either class attribute or instance property
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Actionable comments posted: 11
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Review profile: ASSERTIVE
Plan: Pro
📒 Files selected for processing (7)
splinepy/microstructure/tiles/cross_2d.py(3 hunks)splinepy/microstructure/tiles/cross_3d.py(3 hunks)splinepy/microstructure/tiles/cross_3d_linear.py(3 hunks)splinepy/microstructure/tiles/snappy.py(6 hunks)splinepy/microstructure/tiles/tile_base.py(5 hunks)tests/test_microstructure.py(1 hunks)tests/test_microtiles.py(1 hunks)
🧰 Additional context used
📓 Learnings (7)
tests/test_microtiles.py (2)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microtiles.py:241-248
Timestamp: 2025-01-20T13:25:54.817Z
Learning: The `generate_random_parameters` function in test_tile_derivatives() is correctly scoped as a local helper function and does not need extraction since it's not duplicated elsewhere in the codebase.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microtiles.py:157-159
Timestamp: 2025-01-16T16:28:22.607Z
Learning: In splinepy's microstructure tests, $C_0$-continuity at closure boundaries is implicitly verified through surface integral tests. If the surface integral equals 1, it indicates no gaps or overlaps exist between patches at the closure boundary.
splinepy/microstructure/tiles/cross_2d.py (2)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_2d.py:417-419
Timestamp: 2025-01-20T09:43:40.691Z
Learning: In the Cross2D tile class, parameter bounds will be dynamically updated based on the center_expansion value, eliminating the need for separate max_radius validation.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
splinepy/microstructure/tiles/cross_3d_linear.py (3)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d_linear.py:484-487
Timestamp: 2025-01-20T09:38:11.328Z
Learning: In tile classes, parameter bounds validation is handled by the `_parameter_bounds` class variable and the `_process_input()` method inherited from `TileBase`. Additional dynamic bounds checks may be needed in specific cases, such as when the upper bound depends on other parameters like `center_expansion`.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
splinepy/microstructure/tiles/cross_3d.py (3)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:78-88
Timestamp: 2025-01-17T16:30:34.847Z
Learning: In splinepy's microstructure module, validation logic for tile parameters should be kept within individual tile classes rather than being moved to TileBase, as each tile can have different validation requirements.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
tests/test_microstructure.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microstructure.py:51-52
Timestamp: 2025-01-16T14:31:31.072Z
Learning: When testing closing faces in microstructure tests, boundary ID assertions are not needed as the test only uses specific boundary IDs (2 and 3) as temporary identifiers for min and max boundaries to verify surface areas.
splinepy/microstructure/tiles/tile_base.py (6)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:351-354
Timestamp: 2025-01-20T13:14:48.465Z
Learning: In the splinepy codebase, parameter bounds validation uses open intervals (strict inequalities), and error messages use parentheses notation (a, b) to indicate this. This is evident in the `_check_custom_parameter` method of the `TileBase` class.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:75-88
Timestamp: 2025-01-20T13:09:40.403Z
Learning: In the TileBase class of splinepy, all property methods except `parameter_bounds` are designed to be class methods (using `cls` parameter) as they access class-level attributes meant to be overridden by subclasses. Only `parameter_bounds` is an instance method as it returns instance-dependent values.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:281-293
Timestamp: 2025-01-17T16:15:44.885Z
Learning: In splinepy's TileBase, parameter shape validation is handled through two mechanisms:
1. Test-time validation of default_parameter_value dimensions in test_microtiles.py
2. Runtime validation of final parameter shape in TileBase.check_params()
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:281-293
Timestamp: 2025-01-17T16:15:44.885Z
Learning: Parameter shape validation in splinepy's TileBase is implemented through multiple layers:
1. Class-level validation in test_tile_class ensures _parameters_shape exists and is a tuple
2. Runtime validation in TileBase.check_params() verifies parameter dimensions match (evaluation_points.shape[0], n_info_per_eval_point)
3. Comprehensive testing in test_tile_bounds validates both default and boundary parameter cases
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
splinepy/microstructure/tiles/snappy.py (2)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d_linear.py:484-487
Timestamp: 2025-01-20T09:38:11.328Z
Learning: In tile classes, parameter bounds validation is handled by the `_parameter_bounds` class variable and the `_process_input()` method inherited from `TileBase`. Additional dynamic bounds checks may be needed in specific cases, such as when the upper bound depends on other parameters like `center_expansion`.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/snappy.py:26-29
Timestamp: 2025-01-16T16:38:32.816Z
Learning: In tile classes where parameters are not implemented (like Snappy), empty parameter bounds (`_parameter_bounds = []`) and shape (`_parameters_shape = ()`) are appropriate, as there are no parameters to constrain or shape.
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🔇 Additional comments (28)
splinepy/microstructure/tiles/snappy.py (5)
26-29: LGTM: Class attributes are correctly defined.The empty parameter bounds and shape are appropriate since parameters aren't implemented yet, as confirmed by the retrieved learning from markriegler.
302-302: LGTM: Return statement moved outside conditional.Moving the return statement outside the conditional block in
_closing_tileensures consistent return type.
356-358: LGTM: Parameter validation is properly handled.The custom parameter validation is correctly implemented using the
_check_custom_parametermethod inherited fromTileBase.
375-375: Fixed typo in error message.The typo in "Parametrization" has been corrected.
11-12: 🧹 Nitpick (assertive)TODO comment is inconsistent with implementation.
The TODO comment states that parameters are not implemented "as the parameters variable", which is unclear and grammatically incorrect.
- # TODO: currently the tile parameters are not implemented as the parameters variable - therefore, no parameter sensitivities are calculated + # TODO: Parameters are not implemented yet, therefore parameter sensitivities + # cannot be calculatedLikely invalid or redundant comment.
tests/test_microtiles.py (1)
1-10: LGTM! Well-organized imports and appropriate epsilon value.The imports are properly organized and the epsilon value (1e-8) is suitable for floating-point comparisons in this context.
tests/test_microstructure.py (3)
27-105: LGTM! Well-structured test implementation.The test function is well-documented, uses proper pytest practices, and includes descriptive error messages. The closure verification logic is robust and the helper function is well-structured.
137-137: 🧹 Nitpick (assertive)Consider using a fixed seed for reproducible tests.
While using random points is good for thorough testing, it might lead to flaky tests. Consider using a fixed seed for reproducibility while maintaining test coverage.
- eval_points = np_rng.random((n_test_points, tile_creator._para_dim)) + # Use fixed seed for reproducible tests + eval_points = np.array([ + [0.1, 0.2], + [0.3, 0.4], + [0.5, 0.6], + [0.7, 0.8], + [0.9, 1.0] + ])[:n_test_points, :tile_creator._para_dim]Likely invalid or redundant comment.
178-181: Verify the sign convention in derivative comparison.The comparison shows a sign mismatch between implemented derivatives and finite differences. Please verify if this is intentional or if there's an inconsistency in the derivative calculations.
✅ Verification successful
The sign convention in the derivative comparison is correct and intentional.
The negative sign is required because the finite difference is calculated as
(original - perturbed)/hinstead of the conventional(perturbed - original)/h, making the implemented derivatives opposite in sign to the finite differences.🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Search for other derivative tests to verify the sign convention rg -l "derivative.*finite.*difference" --type pyLength of output: 50
Script:
#!/bin/bash # Search with broader patterns for derivative testing echo "=== Searching for derivative patterns ===" rg "deriv" --type py -l echo -e "\n=== Examining the specific test file ===" cat tests/test_microstructure.pyLength of output: 9038
splinepy/microstructure/tiles/cross_3d_linear.py (8)
39-43: Dynamic computation of_parameter_boundsaddresses inconsistenciesThe
_parameter_boundsproperty now dynamically computes the parameter bounds based on_center_expansion, ensuring consistency and preventing potentialValueErrordue to mismatched bounds. This effectively resolves previous concerns about parameter validation.
45-47: Good practice: Extracted boundary constants improve maintainabilityDefining
_BOUNDARY_WIDTH_BOUNDS,_FILLING_HEIGHT_BOUNDS, and_CENTER_EXPANSION_BOUNDSas class constants enhances code readability and maintainability by centralizing parameter bounds. This makes it easier to manage and update these values in the future.
88-91: Refactored parameter processing improves code clarityUsing
_process_inputto handleparametersandparameter_sensitivitiesin the_closing_tilemethod simplifies the code and enhances maintainability. This refactoring promotes code reuse and reduces redundancy.
93-98: Improved parameter validation using_check_custom_parameterRefactoring the validation of
boundary_widthandfilling_heightusing_check_custom_parameteralong with class constants enhances code consistency and reduces redundancy. This approach ensures that parameter checks are centralized and easily maintainable.
479-481: Consistent parameter validation forcenter_expansionUsing
_check_custom_parameterwith_CENTER_EXPANSION_BOUNDSfor validatingcenter_expansionensures consistent parameter handling across the class. This improves code robustness by centralizing validation logic.
483-483: Assigningcenter_expansionto instance attribute improves encapsulationStoring
center_expansionin the instance attributeself._center_expansionallows each instance ofCross3DLinearto maintain its own state. This enhances object-oriented design principles by encapsulating the attribute within the instance.
485-488: Consistent parameter processing increate_tilemethodUsing
_process_inputin thecreate_tilemethod ensures consistent handling ofparametersandparameter_sensitivitiesthroughout the class. This maintains uniformity and reduces potential errors from inconsistent parameter processing.
31-34: 🧹 Nitpick (assertive)Add docstrings for new class attributes
To enhance code readability and maintainability, consider adding docstrings for the newly added class attributes
_sensitivities_implemented,_closure_directions,_parameters_shape, and_default_parameter_value. This will help other developers understand the purpose and usage of these attributes.⛔ Skipped due to learnings
Learnt from: markriegler PR: tataratat/splinepy#457 File: splinepy/microstructure/tiles/cross_3d.py:31-37 Timestamp: 2025-01-17T16:40:03.329Z Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.Learnt from: markriegler PR: tataratat/splinepy#457 File: splinepy/microstructure/tiles/cross_3d.py:31-37 Timestamp: 2025-01-17T16:40:03.328Z Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.Learnt from: markriegler PR: tataratat/splinepy#457 File: splinepy/microstructure/tiles/cross_3d_linear.py:484-487 Timestamp: 2025-01-20T09:38:11.328Z Learning: In tile classes, parameter bounds validation is handled by the `_parameter_bounds` class variable and the `_process_input()` method inherited from `TileBase`. Additional dynamic bounds checks may be needed in specific cases, such as when the upper bound depends on other parameters like `center_expansion`.Learnt from: markriegler PR: tataratat/splinepy#457 File: splinepy/microstructure/tiles/cross_3d.py:513-528 Timestamp: 2025-01-17T16:31:27.419Z Learning: In splinepy's microstructure module, validation logic for tile parameters should be kept specific to each tile implementation rather than consolidated in TileBase, as each tile has unique requirements and constraints.Learnt from: markriegler PR: tataratat/splinepy#457 File: splinepy/microstructure/tiles/cross_3d.py:78-88 Timestamp: 2025-01-17T16:30:34.847Z Learning: In splinepy's microstructure module, validation logic for tile parameters should be kept within individual tile classes rather than being moved to TileBase, as each tile can have different validation requirements.splinepy/microstructure/tiles/cross_2d.py (1)
38-42: Dynamic_parameter_boundsProperty Implemented CorrectlyThe
_parameter_boundsproperty now dynamically computes bounds based oncenter_expansion, effectively addressing previous concerns regarding parameter validation inconsistencies.splinepy/microstructure/tiles/tile_base.py (4)
37-41: Initialization of class attributes is appropriate.The class attributes
_sensitivities_implemented,_closure_directions,_parameter_bounds,_parameters_shape, and_default_parameter_valueare correctly initialized toNone. This allows subclasses to override them with specific values as needed.
218-231: Parameter bounds checking incheck_paramsis well implemented.The implementation correctly checks if all parameters are within the specified bounds by comparing them against
lower_boundsandupper_bounds. This ensures that invalid parameter values are caught early, maintaining the integrity of the tile configurations.
286-332: Implementation of_process_inputmethod is robust.The
_process_inputmethod effectively handles default parameters, initializes derivatives, and performs necessary validation checks. Setting default values when parameters areNoneand validating withcheck_paramsandcheck_param_derivativesensures reliable processing of input data.
351-353: 🧹 Nitpick (assertive)Enhance type checking for parameter values in
_check_custom_parameter.Currently, the method checks if
valueis an instance ofintorfloat. If you intend to accept any real numerical value (including NumPy floating types), consider usingnumbers.Realfor a more comprehensive type check.Apply this diff to improve type checking:
+ import numbers # Add at the top of the file if not isinstance(value, (int, float)): raise ValueError(f"Invalid type for {param_name}")Change to:
if not isinstance(value, (int, float)): + if not isinstance(value, numbers.Real): raise ValueError(f"Invalid type for {param_name}")Likely invalid or redundant comment.
splinepy/microstructure/tiles/cross_3d.py (6)
31-34: Well-defined class attributes enhance claritySetting
_sensitivities_implemented,_closure_directions,_parameters_shape, and_default_parameter_valueprovides clear specifications for theCross3Dclass, improving maintainability and readability.
37-38: Initialization of_center_expansionis appropriateDefining the default value of
_center_expansionenhances class clarity and ensures consistent behavior unless overridden.
39-44: Dynamic computation of parameter bounds is correctly implementedThe property
_parameter_boundsappropriately calculatesmax_radiusbased onself._center_expansion, ensuring parameter bounds adjust dynamically as expected.
45-47: Defined parameter bounds improve validation consistencyDefining
_BOUNDARY_WIDTH_BOUNDS,_FILLING_HEIGHT_BOUNDS, and_CENTER_EXPANSION_BOUNDSenhances parameter validation and ensures consistent constraints across methods.
88-91: Consistent parameter processing with_process_inputUsing
_process_inputto handleparametersandparameter_sensitivitiesin both_closing_tileandcreate_tilemethods promotes code reuse and reduces duplication.Also applies to: 529-532
93-98: Proper validation of input parametersThe use of
_check_custom_parameterto validateboundary_width,filling_height, andcenter_expansionensures input parameters are within expected bounds, improving reliability.Also applies to: 523-525
There was a problem hiding this comment.
Actionable comments posted: 5
🔭 Outside diff range comments (2)
splinepy/microstructure/tiles/cross_3d.py (1)
473-475: Improve error message consistency for unsupported closures.The error message in
_closing_tilefor an unsupportedclosurecould be more informative and consistent withcreate_tile. Including the supported closure directions helps users correct their inputs.You can update the error message as follows:
raise NotImplementedError( - "Requested closing dimension is not supported" + f"Closure '{closure}' not implemented. Supported closures are: " + + f"{self._closure_directions}" )splinepy/microstructure/tiles/tile_base.py (1)
246-264: Clarify the return value ofcheck_param_derivatives.The method returns
FalsewhenderivativesisNone, butTrueotherwise. To improve clarity:
- Update the docstring to reflect that the method returns
Trueif derivatives are valid andFalseifderivativesisNone.- Alternatively, consider returning
Truein both cases ifNoneis an acceptable value, or raise an exception ifderivativesbeingNoneis invalid.
📜 Review details
Configuration used: CodeRabbit UI
Review profile: ASSERTIVE
Plan: Pro
📒 Files selected for processing (6)
splinepy/microstructure/tiles/cross_3d.py(3 hunks)splinepy/microstructure/tiles/snappy.py(5 hunks)splinepy/microstructure/tiles/tile_base.py(5 hunks)tests/conftest.py(2 hunks)tests/test_microstructure.py(1 hunks)tests/test_microtiles.py(1 hunks)
🧰 Additional context used
📓 Learnings (5)
tests/test_microstructure.py (1)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microstructure.py:51-52
Timestamp: 2025-01-16T14:31:31.072Z
Learning: When testing closing faces in microstructure tests, boundary ID assertions are not needed as the test only uses specific boundary IDs (2 and 3) as temporary identifiers for min and max boundaries to verify surface areas.
splinepy/microstructure/tiles/snappy.py (3)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/snappy.py:31-31
Timestamp: 2025-02-06T15:42:40.613Z
Learning: The Snappy tile in splinepy/microstructure/tiles/snappy.py is a special case that doesn't use the standard parameter implementation due to its complex parameter handling. The tile is currently not actively used, and its parameters are marked as unimplemented with TODO comments.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d_linear.py:484-487
Timestamp: 2025-01-20T09:38:11.328Z
Learning: In tile classes, parameter bounds validation is handled by the `_parameter_bounds` class variable and the `_process_input()` method inherited from `TileBase`. Additional dynamic bounds checks may be needed in specific cases, such as when the upper bound depends on other parameters like `center_expansion`.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/snappy.py:26-29
Timestamp: 2025-01-16T16:38:32.816Z
Learning: In tile classes where parameters are not implemented (like Snappy), empty parameter bounds (`_parameter_bounds = []`) and shape (`_parameters_shape = ()`) are appropriate, as there are no parameters to constrain or shape.
tests/test_microtiles.py (2)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microtiles.py:241-248
Timestamp: 2025-01-20T13:25:54.817Z
Learning: The `generate_random_parameters` function in test_tile_derivatives() is correctly scoped as a local helper function and does not need extraction since it's not duplicated elsewhere in the codebase.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: tests/test_microtiles.py:157-159
Timestamp: 2025-01-16T16:28:22.607Z
Learning: In splinepy's microstructure tests, $C_0$-continuity at closure boundaries is implicitly verified through surface integral tests. If the surface integral equals 1, it indicates no gaps or overlaps exist between patches at the closure boundary.
splinepy/microstructure/tiles/cross_3d.py (4)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:78-88
Timestamp: 2025-01-17T16:30:34.847Z
Learning: In splinepy's microstructure module, validation logic for tile parameters should be kept within individual tile classes rather than being moved to TileBase, as each tile can have different validation requirements.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.329Z
Learning: The attributes `_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, and `_default_parameter_value` are defined in the `TileBase` class and can be overridden by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_2d.py:86-89
Timestamp: 2025-02-06T12:17:24.389Z
Learning: In the Cross2D tile class, `center_expansion` parameter is only relevant for `create_tile` and should not be modified by `_closing_tile`. The value is set in `create_tile` and used for calculating parameter bounds.
splinepy/microstructure/tiles/tile_base.py (6)
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/cross_3d.py:31-37
Timestamp: 2025-01-17T16:40:03.328Z
Learning: The `TileBase` class in splinepy defines base attributes (`_sensitivities_implemented`, `_closure_directions`, `_parameter_bounds`, `_parameters_shape`, `_default_parameter_value`) as `None`, which subclasses must override with specific values. The base class provides property getters that raise errors if these values are not set by subclasses.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:351-354
Timestamp: 2025-01-20T13:14:48.465Z
Learning: In the splinepy codebase, parameter bounds validation uses open intervals (strict inequalities), and error messages use parentheses notation (a, b) to indicate this. This is evident in the `_check_custom_parameter` method of the `TileBase` class.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:75-88
Timestamp: 2025-01-20T13:09:40.403Z
Learning: In the TileBase class of splinepy, all property methods except `parameter_bounds` are designed to be class methods (using `cls` parameter) as they access class-level attributes meant to be overridden by subclasses. Only `parameter_bounds` is an instance method as it returns instance-dependent values.
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:281-293
Timestamp: 2025-01-17T16:15:44.885Z
Learning: In splinepy's TileBase, parameter shape validation is handled through two mechanisms:
1. Test-time validation of default_parameter_value dimensions in test_microtiles.py
2. Runtime validation of final parameter shape in TileBase.check_params()
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:281-293
Timestamp: 2025-01-17T16:15:44.885Z
Learning: Parameter shape validation in splinepy's TileBase is implemented through multiple layers:
1. Class-level validation in test_tile_class ensures _parameters_shape exists and is a tuple
2. Runtime validation in TileBase.check_params() verifies parameter dimensions match (evaluation_points.shape[0], n_info_per_eval_point)
3. Comprehensive testing in test_tile_bounds validates both default and boundary parameter cases
Learnt from: markriegler
PR: tataratat/splinepy#457
File: splinepy/microstructure/tiles/tile_base.py:75-88
Timestamp: 2025-02-06T16:16:33.758Z
Learning: In the TileBase class, class-level properties are implemented using the `@property` decorator with `cls` parameter, which works for the project's use case despite being less conventional than using a custom `@classproperty` decorator.
⏰ Context from checks skipped due to timeout of 90000ms (17)
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🔇 Additional comments (20)
splinepy/microstructure/tiles/cross_3d.py (9)
31-34: Attributes correctly overridden in subclass.The class attributes
_sensitivities_implemented,_closure_directions,_parameters_shape, and_default_parameter_valueare appropriately defined in theCross3Dsubclass, ensuring that the tile behaves as intended according to its specific requirements.
36-37: Default value for_center_expansionis properly initialized.Initializing
_center_expansionto1.0provides a sensible default that maintains the standard size of the center component unless specified otherwise.
39-43: Dynamic computation of_parameter_boundsenhances flexibility.By computing
_parameter_boundsbased on_center_expansion, the code dynamically adjusts the valid range ofparameters, ensuring that they remain within acceptable limits relative to the center expansion factor.
88-91: Refactored input processing improves maintainability.Utilizing
_process_inputin_closing_tilecentralizes the handling ofparametersandparameter_sensitivities, reducing code duplication and enhancing maintainability.
93-98: Parameter validation is correctly implemented.Using
_check_custom_parameterto validateboundary_widthandfilling_heightagainst defined bounds ensures that these parameters are within the expected ranges, preventing potential runtime errors.
523-525: Validatingcenter_expansionstrengthens input safety.Checking
center_expansionagainst_CENTER_EXPANSION_BOUNDSbefore use ensures that the provided value is within the valid range, enhancing the robustness of thecreate_tilemethod.
527-527: Proper assignment of_center_expansion.Assigning
center_expansiontoself._center_expansionretains the value for use in other methods, such as computing_parameter_bounds.
529-532: Consistent input processing with_process_input.Reusing
_process_inputincreate_tileensures consistent processing and validation ofparametersandparameter_sensitivitiesacross methods.
535-539: Comprehensive error message for unsupported closures.The
create_tilemethod provides a clear error message when an unsupportedclosureis specified, listing the supported options, which aids in user debugging.splinepy/microstructure/tiles/tile_base.py (4)
9-31: Enhanced documentation for class attributes.The added docstrings provide clear and detailed descriptions of the class attributes, improving code readability and maintainability.
37-41: Initialization of class-level attributes for subclass overriding.Initializing the class-level attributes to
Nonesets a clear expectation for subclasses to override these values with specific implementations.
145-161: Appropriate use of instance method forparameter_bounds.Using
selfinstead ofclsin theparameter_boundsproperty is appropriate since the parameter bounds can vary between instances, especially for tiles likeCross2D.
352-354: Correctly allowing integer types for parameter values.The updated type check appropriately accepts both
intandfloattypes forvalue, ensuring that integer parameter values are handled correctly.tests/test_microstructure.py (1)
182-184: Verify the use of negative sign in derivative comparisonIn the assertion comparing the implemented derivative and the finite difference derivative, the implemented derivative is negated. Please verify that the negative sign is appropriate and consistent with the expected mathematical formulation.
tests/test_microtiles.py (1)
1-460: Tests are comprehensive and well-structuredThe test functions thoroughly validate the tile classes and their functionalities.
tests/conftest.py (1)
59-65: Add comment about performance considerationsConsider adding a comment explaining the trade-off between test coverage and execution time in choosing the number of test points.
splinepy/microstructure/tiles/snappy.py (4)
26-29: Setting empty parameter bounds and shapes is appropriate for parameterless tilesAssigning
_parameter_bounds = []and_parameters_shape = ()correctly reflects that theSnappytile does not have parameters implemented. This is consistent with the tile's unique handling of parameters.
373-373: Fix typo in error messageThe typo in the error message has been corrected from "Parametriazation" to "Parametrization," enhancing clarity and professionalism in the codebase.
300-301: Ensure the method_closing_tilealways returns a valueAdding the
return (spline_list, None)outside the conditional blocks ensures that the method_closing_tilealways returns the expected values. This prevents potentialNoneTypeerrors whenclosureis not'y_min'or'y_max'.
31-31:⚠️ Potential issueEnsure contact length bounds are consistent with parameter constraints
The upper bound of
_CONTACT_LENGTH_BOUNDSis set to0.5, but according to the constraint(r + contact_length) < 0.5, and with the defaultr = 0.15, the maximum validcontact_lengthshould be0.35to satisfy0.15 + contact_length < 0.5. This discrepancy could lead to runtime errors if acontact_lengthbetween0.35and0.5is provided.Apply this diff to adjust the upper bound:
-_CONTACT_LENGTH_BOUNDS = [0.0, 0.5] +_CONTACT_LENGTH_BOUNDS = [0.0, 0.35]Alternatively, consider updating the parameter check to dynamically enforce the upper bound based on the current value of
r:def create_tile( self, parameters=None, parameter_sensitivities=None, # TODO contact_length=0.1, a=0.1, b=0.2, c=0.3, r=0.15, closure=None, **kwargs, # noqa ARG002 ): # Existing type and value checks for param in [a, b, c, r, contact_length]: if not isinstance(param, float): raise TypeError(f"Invalid Type, {param} is not float") if param < 0: raise ValueError("Invalid parameter, must be > 0.") + # Dynamically adjust the upper bound based on the value of r + max_contact_length = 0.5 - r + self._check_custom_parameter( + contact_length, + "contact length", + [self._CONTACT_LENGTH_BOUNDS[0], max_contact_length], + ) # Rest of the code...This approach ensures that the constraint
(r + contact_length) < 0.5is always satisfied, regardless of the value ofr.Likely invalid or redundant comment.
| self._logd( | ||
| f"Setting parameters to default values ({default_value})" | ||
| ) |
There was a problem hiding this comment.
Ensure self._logd is defined for logging.
The method _process_input uses self._logd for logging purposes. Please verify that _logd is defined within the class or inherited properly to avoid AttributeError.
| f"The parameters {parameters} must be within the following bounds: " | ||
| + f"lower: {lower_bounds} and upper: {upper_bounds}" | ||
| ) | ||
|
|
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🧹 Nitpick (assertive)
Enhance error message to identify out-of-bounds parameters.
Consider modifying the error message to specify which parameters are out of bounds. This provides clearer feedback and aids in debugging.
Apply this diff to improve the error message:
- raise ValueError(
- f"The parameters {parameters} must be within the following bounds: "
- + f"lower: {lower_bounds} and upper: {upper_bounds}"
- )
+ out_of_bounds = parameters[
+ ~within_bounds.reshape(parameters.shape)
+ ]
+ raise ValueError(
+ f"The following parameters are out of bounds {out_of_bounds}. "
+ f"Expected bounds: lower: {lower_bounds} and upper: {upper_bounds}"
+ )📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| f"The parameters {parameters} must be within the following bounds: " | |
| + f"lower: {lower_bounds} and upper: {upper_bounds}" | |
| ) | |
| out_of_bounds = parameters[ | |
| ~within_bounds.reshape(parameters.shape) | |
| ] | |
| raise ValueError( | |
| f"The following parameters are out of bounds {out_of_bounds}. " | |
| f"Expected bounds: lower: {lower_bounds} and upper: {upper_bounds}" | |
| ) |
| """ | ||
| Perturbation/step size for finite difference evaluation of derivative/sensitivity. | ||
|
|
||
| The value 1e-4 is arbitrary, but is a a compromise between: | ||
| - Being small enough to ensure the finite difference calculation being accurate | ||
| enough | ||
| - Being large enough to avoid round-off error in floating-point arithmetic | ||
| """ | ||
| return 1e-5 |
There was a problem hiding this comment.
Correct the inconsistency between docstring and returned value
In the heps fixture, the docstring mentions that the value 1e-4 is used, but the function actually returns 1e-5. Please update the docstring or the return value to ensure consistency.
| The value 1e-4 is arbitrary, but is a a compromise between: | ||
| - Being small enough to ensure the finite difference calculation being accurate |
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🧹 Nitpick (assertive)
Fix typographical error in docstring
There is a repeated word in the docstring: "is a a compromise" should be "is a compromise".
| @@ -340,12 +347,13 @@ def create_tile( | |||
|
|
|||
| for param in [a, b, c, r, contact_length]: | |||
| if not isinstance(param, float): | |||
| raise ValueError(f"Invalid Type, {param} is not float") | |||
| raise TypeError(f"Invalid Type, {param} is not float") | |||
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🧹 Nitpick (assertive)
Consider accepting integers as valid numeric types for parameters
Currently, the code raises a TypeError if param is not a float. To improve usability, consider accepting integers as well by checking for isinstance(param, (int, float)). This allows users to pass integer values without encountering unnecessary exceptions.
Apply this diff to accept both integers and floats:
- if not isinstance(param, float):
+ if not isinstance(param, (int, float)):📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| raise TypeError(f"Invalid Type, {param} is not float") | |
| if not isinstance(param, (int, float)): | |
| raise TypeError(f"Invalid Type, {param} is not float") |
Overview
Addressing issue #392: this should add tests related to all microstructure- and microtiles-related code.
Addressing issue #458: some changes to the code of the microtiles and possibly the microstructure are needed in order to satisfy the tests.
Checklist of what to test
Summary by CodeRabbit
Summary by CodeRabbit
New Features
HollowOctagonExtrudeclass.Cross2D,Cross3D, andCross3DLinearclasses for improved parameter management.create_tilemethod in several classes to streamline parameter processing and validation.DoubleLattice,HollowCube, andHollowOctagonclasses for better parameter management.Bug Fixes
Tests