feat: add 'augurs' convenience crate, re-exporting other crates #117
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This requires a bit of hackery to make sure wasm-pack emits files with the right names and references, and to fix the package name before publishing to npm. Once rustwasm/wasm-pack#949 is fixed we can remove the bit of prepublish.js that renames the package.
To avoid conflicts with the new 'augurs' wrapper library.
This should make it easier for consumers, so they don't have to figure out which crates to import; they can just enable the 'full' feature flag to get started.
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Actionable comments posted: 8
Outside diff range and nitpick comments (30)
justfile (1)
Consider Adding a Version Bump Step Before Publishing
The
publish-npmtarget is well-structured and correctly references the existingprepublish.jsscript. However, to enhance the publishing process:
Version Control:
- Add a step to increment the package version before publishing. This helps prevent accidental republishing of the same version.
- Example addition:
publish-npm: cd crates/augurs-js && \ wasm-pack build --release --scope bsull --out-name augurs --target web -- --features parallel && \ node prepublish.js && \ npm version patch && \ wasm-pack publish --access publicPrepublish Script Verification:
- Ensure that the
node prepublish.jscommand executes without issues. The script appears correctly set up, but confirm it runs as expected during the publish process.Analysis chain
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1-7: Consider version control and verify prepublish script.The
publish-npmtarget looks well-structured. However, consider the following suggestions:
Version Control: Consider adding a step to update the version number before publishing. This could help prevent accidental republishing of the same version.
Prepublish Script: Ensure that the
prepublishscript is updated to handle any new requirements introduced by the 'augurs' convenience crate.To verify the prepublish script:
This will help ensure that the prepublish script is correctly set up for the new 'augurs' crate.
Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Check the content of the prepublish script # Test: Display the content of the prepublish script cat crates/augurs-js/prepublishLength of output: 93
Script:
#!/bin/bash # Description: Search for prepublish scripts in the codebase # Search for files named prepublish or prepublish.* recursively fd prepublish --type fLength of output: 55
Script:
#!/bin/bash # Description: Display the contents of the prepublish.js script # Display the content of prepublish.js cat crates/augurs-js/prepublish.jsLength of output: 1867
crates/augurs-changepoint/README.md (2)
3-3: Consider providing more specific information in the introduction.The new description "Changepoint detection of time series" is concise, but it might benefit from additional context. Consider expanding it slightly to give users a better understanding of the crate's purpose and capabilities.
Also, the removal of the note about alpha quality and potential API changes suggests that the crate might be more stable now. If this is the case, it's great news! However, if the crate is still in development, it might be helpful to retain some form of version or stability information.
Consider updating the introduction to something like:
Changepoint detection algorithms for time series analysis. This crate provides tools for identifying points in time series data where statistical properties change. Current version: [insert version number] Stability: [insert stability status]
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1-24: Consider expanding the README for improved user guidance.The current README provides a good introduction, example, and credits. However, to make it more comprehensive and user-friendly, consider adding the following sections:
- Installation: Provide instructions on how to add the crate to a project's
Cargo.toml.- Features: List and explain any optional features the crate may have.
- Advanced Usage: Include more complex examples or scenarios where the crate can be useful.
- API Documentation: Add a link to the crate's API documentation.
- Contributing: If applicable, add information on how others can contribute to the project.
These additions would provide a more complete guide for users of various experience levels.
Tools
LanguageTool
[typographical] ~4-~4: Consider adding a comma here.
Context: ... Changepoint detection of time series. For now it is mostly just a wrapper around the ...(FOR_NOW_COMMA)
[locale-violation] ~6-~6: The phrase ‘in future’ is British English. Did you mean: “in the future”?
Context: ...trait to allow for more implementations in future. ## Example ```rust use augurs_change...(IN_FUTURE)
Markdownlint
1-1: Punctuation: '.'
Trailing punctuation in heading(MD026, no-trailing-punctuation)
crates/augurs-clustering/benches/dbscan.rs (1)
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1-24: Consider updating related documentation.The renaming from
DbscantoDbscanClustererimproves code clarity. While the changes in this file are correct and consistent, it's important to ensure that any related documentation (e.g., README files, API docs) is also updated to reflect this change.crates/augurs/src/lib.rs (3)
1-7: Good use of documentation and compiler warnings.The inclusion of the README as documentation and the set of compiler warnings are excellent practices for maintaining code quality and providing clear information about the crate.
Consider adding
clippy::allto the list of warnings to enable additional lints provided by Clippy. This can help catch more potential issues and improve code quality further.#![warn( missing_docs, missing_debug_implementations, rust_2018_idioms, - unreachable_pub + unreachable_pub, + clippy::all )]
9-32: Well-structured conditional exports of submodules.The conditional exports based on feature flags align well with the PR objectives, allowing users to include only the desired functionalities. The renaming of submodules and use of
#[doc(inline)]attributes enhance usability and documentation.For consistency and to make the code more compact, consider using a macro to define these exports. This would make it easier to add new modules in the future and reduce repetition. Here's an example:
macro_rules! conditional_export { ($($feature:literal, $module:ident),+) => { $( #[doc(inline)] #[cfg(feature = $feature)] pub use concat_idents!(augurs_, $module) as $module; )+ }; } conditional_export! { "changepoint", changepoint, "clustering", clustering, "dtw", dtw, "ets", ets, "forecaster", forecaster, "mstl", mstl, "outlier", outlier, "seasons", seasons }This approach would require adding
#![feature(concat_idents)]at the top of the file, which is only available in nightly Rust. If you're targeting stable Rust, the current approach is fine.
34-36: Effective re-exports from augurs_core.The re-exports of core components from
augurs_corealign well with the PR objective of simplifying imports for consumers. This approach makes it easier for users to access essential functionality.Consider adding a brief comment above the re-exports to explain their purpose and usage. This can help users understand the significance of these items. For example:
// Re-export core components for easier access. // Users can import these directly from the root of the crate. pub use augurs_core::{ prelude, DistanceMatrix, Fit, Forecast, ForecastIntervals, ModelError, Predict, };crates/augurs-testing/src/lib.rs (1)
20-24: Approve length check addition with a minor suggestion.The addition of the length check improves the robustness of the
assert_all_closefunction. It prevents potential issues that could arise from comparing slices of different lengths.Consider adding the actual lengths to the error message for easier debugging:
assert_eq!( actual.len(), expected.len(), - "slices have different lengths" + "slices have different lengths: actual {} != expected {}", + actual.len(), + expected.len() );crates/augurs/Cargo.toml (2)
11-20: LGTM: Dependencies are well-structured with appropriate use of optional flags.The dependencies are correctly defined, using workspace-level versions and optional flags where appropriate. This structure aligns well with the PR objective of providing flexibility through feature flags.
Consider adding a brief comment explaining why
augurs-coreis the only non-optional dependency. This would improve the maintainability of the crate by clarifying its core requirements.
26-37: LGTM: Features are well-defined and align with PR objectives.The features section is structured effectively, providing flexibility for users to enable specific functionality as needed. The 'full' feature, which enables all other features, aligns well with the PR objective of simplifying imports for users.
Consider adding a brief comment explaining the purpose of the 'full' feature and how it relates to the convenience aspect of this crate. This would improve the usability of the crate for new users.
crates/augurs-js/src/clustering.rs (2)
36-36: LGTM! Consider adding a comment for improved maintainability.The change from
augurs_clustering::Dbscan::newtoaugurs_clustering::DbscanClusterer::newis consistent with the update to theinnerfield type in the struct definition. It's good that the parameters remain the same, maintaining the existing API.Consider adding a comment explaining the reason for this change. For example:
// Using DbscanClusterer instead of Dbscan due to updates in the augurs_clustering crate inner: augurs_clustering::DbscanClusterer::new(opts.epsilon, opts.min_cluster_size),This will improve code maintainability by providing context for future developers.
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1-50: Summary: Changes align well with PR objectives, consider documentation updates.The changes in this file, specifically updating the type and initialization of the
innerfield in theDbscanstruct, align well with the PR objectives of re-exporting other crates and simplifying imports for consumers. The public API of theDbscanstruct remains unchanged, which is excellent for maintaining backwards compatibility.These changes appear to be part of a larger refactoring effort, possibly aimed at improving the underlying implementation or providing more flexibility in the
augurs_clusteringcrate.Consider the following suggestions:
- Update the crate's documentation to reflect these changes, especially if there are any new features or improvements introduced by the
DbscanClusterer.- Review and update any examples that use the
Dbscanstruct to ensure they're using the most up-to-date and recommended practices.- If there are performance or functionality improvements associated with this change, consider mentioning them in the crate's changelog or release notes.
These steps will help ensure that users are well-informed about the changes and can take full advantage of any improvements introduced by this refactoring.
crates/augurs-clustering/README.md (1)
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11-24: Usage example updated correctly, but could be more illustrative.The usage example has been correctly updated to use
DbscanClustererinstead ofDbscan, which is consistent with the reported changes. The example demonstrates how to create a distance matrix and use the clustering algorithm.Consider enhancing the example to show a more meaningful clustering result. The current assertion shows all points as noise (-1), which might not be the most illustrative example of the algorithm's capabilities. A slight modification to the distance matrix or clustering parameters could result in actual clusters forming, which would be more informative for users.
For instance:
let distance_matrix = DistanceMatrix::try_from_square( vec![ vec![0.0, 0.1, 0.2, 2.0], vec![0.1, 0.0, 0.15, 2.1], vec![0.2, 0.15, 0.0, 2.2], vec![2.0, 2.1, 2.2, 0.0], ], )?; let clusters = DbscanClusterer::new(0.3, 2).fit(&distance_matrix); assert_eq!(clusters, vec![0, 0, 0, 1]);This would show two distinct clusters (0 and 1), better illustrating the DBSCAN algorithm's behavior.
crates/augurs-js/Cargo.toml (2)
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17-17: Consider expanding the use of the "parallel" feature.The "parallel" feature is currently only used by the "augurs-dtw" dependency. Given that this feature enables the use of
wasm-bindgen-rayon, it might be beneficial to consider applying it to other computationally intensive dependencies as well, if applicable.
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30-34: Consider adding a production-optimized build configuration.The
console_error_panic_hookcrate is great for development debugging, but as noted in the comment, it increases code size. Consider adding a separate production build configuration that excludes this dependency for optimized builds.For example, you could add a "dev-utils" feature that includes
console_error_panic_hookandtracing-wasm:[features] default = ["console_error_panic_hook"] parallel = ["wasm-bindgen-rayon"] dev-utils = ["console_error_panic_hook", "tracing-wasm"] [dependencies] console_error_panic_hook = { version = "0.1.7", optional = true } tracing-wasm = { version = "0.2.1", optional = true }This way, you can easily exclude these development utilities in production builds.
crates/augurs-js/prepublish.js (2)
22-26: LGTM: Good check for correct 'main' field.This check ensures that the package is correctly configured before publishing. The error message is clear and helpful.
Consider adding a success log message when the check passes, for consistency with other operations in the script. For example:
if (pkg.main !== 'augurs.js') { console.error(`Error: The 'main' field in package.json is not set to "augurs.js". Make sure you passed '--out-name augurs' to 'wasm-pack build'.`); process.exit(1); +} else { + console.log("The 'main' field is correctly set to 'augurs.js'."); }
37-39: LGTM: Package renaming implemented correctly.The package renaming from "augurs-js" to "augurs" is implemented correctly and aligns with the PR objectives. The log message provides clear feedback on the action taken.
Consider adding a check to ensure that the package name is actually changed. This would make the script more robust in case of future modifications. For example:
+const oldName = pkg.name; pkg.name = 'augurs'; -console.log('Renamed the npm package from "augurs-js" to "augurs".'); +if (oldName !== pkg.name) { + console.log(`Renamed the npm package from "${oldName}" to "${pkg.name}".`); +} else { + console.log('Package name is already set to "augurs".'); +}crates/augurs/README.md (4)
1-15: LGTM! Consider adding a brief description of the crate's purpose.The introduction provides a good overview of the
augurstoolkit and includes useful badges. The mention of Python and JavaScript bindings is helpful for users of those languages.Consider adding a brief one-sentence description of the crate's primary purpose right after the title. This would immediately inform readers about the crate's main functionality.
17-31: LGTM! Consider grouping related feature flags.The feature flags section clearly explains the available options and aligns well with the PR objective of simplifying imports for users. The
fullfeature flag is particularly useful for users who need all functionalities.Consider grouping related feature flags together. For example, you could group
mstlandmstl-etstogether, andetsandforecastertogether. This might help users better understand the relationships between different features.Tools
LanguageTool
[uncategorized] ~21-~21: Loose punctuation mark.
Context: ...functionality you need: -changepoint: changepoint detection -clustering: c...(UNLIKELY_OPENING_PUNCTUATION)
33-61: LGTM! Consider adding comments to the code example.The "Getting started" section provides clear instructions and a relevant code example, which aligns well with the PR objective of simplifying the initial setup for users.
Consider adding brief comments to the code example to explain each step. This would make it even easier for new users to understand what's happening in the example.
65-71: LGTM! Consider moving the package links to a separate section.The license section clearly specifies the dual-licensing of the project, which is important information for users and contributors.
Consider moving the links to the Python and npm packages (lines 70-71) to a separate "Related Packages" section. This would improve the organization of the README and keep the license section focused on licensing information.
crates/pyaugurs/src/clustering.rs (1)
69-69: LGTM! Consider updating documentation.The change from
augurs_clustering::Dbscan::newtoaugurs_clustering::DbscanClusterer::newis consistent with the earlier type change and maintains the existing functionality.Consider updating the class-level documentation for
Dbscanto reflect the use ofDbscanClustererif there are any behavioral changes or new features introduced by this change. If there are no significant changes in behavior, you can disregard this suggestion.README.md (2)
1-12: Approved: Comprehensive project description updateThe changes to the project title and description effectively communicate the expanded scope of the
augurstoolkit. The inclusion of additional features such as outlier detection, clustering, seasonality detection, and changepoint detection aligns well with the PR objectives.Consider adding a brief mention of the new 'augurs' convenience crate in the description to highlight its role in simplifying imports for users.
22-35: Approved: Updated crate descriptions tableThe changes to the crate descriptions table accurately reflect the addition of the new 'augurs' wrapper crate and the updated status of 'augurs-clustering' and 'augurs-dtw'. These updates align well with the PR objectives and provide a clear overview of the project's components.
Consider adding a brief note about the 'full' feature flag for the 'augurs' wrapper crate, as mentioned in the PR objectives. This could help users understand how to access all functionality easily.
crates/augurs-clustering/src/lib.rs (1)
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1-190: Summary: Successful renaming with potential for documentation updateThe renaming of
DbscantoDbscanClustererhas been successfully implemented throughout the file. All instances of the struct name, including those in the implementation block and test cases, have been consistently updated. The changes improve code clarity without affecting the functionality of the DBSCAN clustering algorithm.The comprehensive updates, covering both simple and real-world test cases, demonstrate thorough attention to detail and maintain the integrity of the test suite.
While the code changes are approved, consider the following suggestion for further improvement:
Update the documentation comments (particularly the one above the struct definition) to reflect the new name
DbscanClusterer. This will ensure that the documentation remains consistent with the code and provides accurate information to users of this module.crates/augurs-mstl/src/lib.rs (1)
274-274: LGTM: Use ofassert_all_closefromaugurs_testingThis change improves the test code by using a standardized assertion function from the
augurs_testingcrate. It promotes consistency across the project and reduces the need for custom test utilities in individual modules.Consider adding a comment explaining why
assert_all_closeis preferred over the standardassert_eq!for floating-point comparisons, to help future maintainers understand the rationale behind this choice.crates/augurs-ets/src/ets.rs (1)
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569-581: Approve test modifications: Consistent with import changesThe removal of the module prefix for
assert_approx_eqcalls is consistent with the new import statement. The test logic and expected values remain unchanged, which is good as it indicates that the refactoring hasn't affected the model's behavior.For improved consistency, consider updating the
APusage on line 569 to use the full nameAIR_PASSENGERS, matching the import statement.- AP, + AIR_PASSENGERS,crates/augurs-dtw/src/lib.rs (2)
13-13: LGTM! Consider adding a comment for clarity.The addition of the
tracing::debugimport is appropriate for debugging parallel computations. However, to improve code readability, consider adding a brief comment explaining why this import is feature-gated.You could add a comment like this:
#[cfg(feature = "parallel")] +// Import debug macro for logging in parallel computations use tracing::debug;
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441-442: LGTM! Consider adding debug logging for non-parallel case.The use of the
debugmacro for logging parallel computation is good. For consistency and to aid in debugging, consider adding a similar debug log for the non-parallel case as well.You could add a debug log for the non-parallel case like this:
#[cfg(not(feature = "parallel"))] let matrix = series + .iter() + .inspect(|_| debug!("Calculating distance matrix sequentially")) .map(|s| { series .iter() .map(|t| self.distance_with_early_stopping(s, t)) .collect() }) .collect();crates/augurs/tests/integration.rs (1)
254-264: Consider Direct Initialization for ReadabilityThe data series in lines 255-264 uses
#[rustfmt::skip]to maintain formatting. For improved readability and maintainability, consider initializing the data directly without needing to skip formatting.Example:
let y = &[ 0.1, 0.3, 0.8, 0.5, 0.1, 0.31, 0.79, 0.48, 0.09, 0.29, 0.81, 0.49, 0.11, 0.28, 0.78, 0.53, 0.1, 0.3, 0.8, 0.5, 0.1, 0.31, 0.79, 0.48, 0.09, 0.29, 0.81, 0.49, 0.11, 0.28, 0.78, 0.53, ];This approach maintains the intended formatting without disabling
rustfmt.
Review details
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Review profile: CHILL
Files selected for processing (30)
- README.md (3 hunks)
- crates/augurs-changepoint/README.md (1 hunks)
- crates/augurs-clustering/README.md (2 hunks)
- crates/augurs-clustering/benches/dbscan.rs (2 hunks)
- crates/augurs-clustering/src/lib.rs (3 hunks)
- crates/augurs-dtw/src/lib.rs (1 hunks)
- crates/augurs-ets/Cargo.toml (0 hunks)
- crates/augurs-ets/src/auto.rs (2 hunks)
- crates/augurs-ets/src/data.rs (0 hunks)
- crates/augurs-ets/src/ets.rs (3 hunks)
- crates/augurs-ets/src/lib.rs (0 hunks)
- crates/augurs-ets/src/model.rs (5 hunks)
- crates/augurs-ets/src/stat.rs (1 hunks)
- crates/augurs-js/Cargo.toml (1 hunks)
- crates/augurs-js/prepublish.js (2 hunks)
- crates/augurs-js/src/clustering.rs (2 hunks)
- crates/augurs-js/src/outlier.rs (4 hunks)
- crates/augurs-mstl/src/lib.rs (4 hunks)
- crates/augurs-mstl/src/mstl.rs (0 hunks)
- crates/augurs-outlier/README.md (2 hunks)
- crates/augurs-outlier/src/dbscan.rs (8 hunks)
- crates/augurs-outlier/src/lib.rs (1 hunks)
- crates/augurs-testing/src/lib.rs (2 hunks)
- crates/augurs/Cargo.toml (1 hunks)
- crates/augurs/README.md (1 hunks)
- crates/augurs/src/lib.rs (1 hunks)
- crates/augurs/tests/integration.rs (1 hunks)
- crates/pyaugurs/Cargo.toml (1 hunks)
- crates/pyaugurs/src/clustering.rs (2 hunks)
- justfile (1 hunks)
Files not reviewed due to no reviewable changes (4)
- crates/augurs-ets/Cargo.toml
- crates/augurs-ets/src/data.rs
- crates/augurs-ets/src/lib.rs
- crates/augurs-mstl/src/mstl.rs
Files skipped from review due to trivial changes (2)
- crates/augurs-outlier/README.md
- crates/augurs-outlier/src/lib.rs
Additional context used
LanguageTool
crates/augurs/README.md
[uncategorized] ~21-~21: Loose punctuation mark.
Context: ...functionality you need: -changepoint: changepoint detection -clustering: c...(UNLIKELY_OPENING_PUNCTUATION)
Additional comments not posted (57)
justfile (1)
4-4: Explicit output naming improves clarity and consistency.The addition of
--out-name augursto thewasm-pack buildcommand is a positive change. It explicitly sets the output name to "augurs", which aligns well with the PR's objective of introducing an 'augurs' convenience crate. This modification enhances clarity in the build process and ensures consistency in naming across the project.crates/augurs-changepoint/README.md (2)
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7-18: Example section looks good!The provided example is clear, concise, and demonstrates the basic usage of the crate effectively. It shows how to use the
DefaultArgpcpDetectorand includes an assertion to verify the expected output, which is helpful for users.Tools
LanguageTool
[typographical] ~4-~4: Consider adding a comma here.
Context: ... Changepoint detection of time series. For now it is mostly just a wrapper around the ...(FOR_NOW_COMMA)
[locale-violation] ~6-~6: The phrase ‘in future’ is British English. Did you mean: “in the future”?
Context: ...trait to allow for more implementations in future. ## Example ```rust use augurs_change...(IN_FUTURE)
Markdownlint
1-1: Punctuation: '.'
Trailing punctuation in heading(MD026, no-trailing-punctuation)
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20-24: Credits section is appropriate and informative.The credits section properly acknowledges the
changepointcrate and provides a link to its crates.io page. This is helpful for users who want to learn more about the underlying library.Tools
LanguageTool
[typographical] ~4-~4: Consider adding a comma here.
Context: ... Changepoint detection of time series. For now it is mostly just a wrapper around the ...(FOR_NOW_COMMA)
[locale-violation] ~6-~6: The phrase ‘in future’ is British English. Did you mean: “in the future”?
Context: ...trait to allow for more implementations in future. ## Example ```rust use augurs_change...(IN_FUTURE)
Markdownlint
1-1: Punctuation: '.'
Trailing punctuation in heading(MD026, no-trailing-punctuation)
crates/augurs-clustering/benches/dbscan.rs (1)
18-18: LGTM! Consistent usage of the new struct name.The change from
Dbscan::new(10.0, 3)toDbscanClusterer::new(10.0, 3)is consistent with the import change. The parameters remain the same, ensuring that the benchmark continues to test the same functionality as before.crates/pyaugurs/Cargo.toml (2)
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1-31: Consider adding a 'full' feature flagThe PR objectives mention enabling a 'full' feature flag to allow users to access all necessary imports. However, this feature is not currently defined in the
Cargo.tomlfile. Consider adding a 'full' feature that enables all subcrate features. This could look something like:[features] full = ["augurs-clustering/full", "augurs-core/full", "augurs-dtw/full", "augurs-ets/full", "augurs-forecaster/full", "augurs-mstl/full", "augurs-seasons/full"]Add the 'full' feature definition to align with the PR objectives and provide users with an easy way to enable all features.
To ensure that all subcrates support a 'full' feature, run the following script:
#!/bin/bash # Description: Check if all augurs subcrates support a 'full' feature echo "Checking for 'full' feature support in augurs subcrates:" for crate in clustering core dtw ets forecaster mstl seasons; do if rg -q '^\[features\]' "crates/augurs-$crate/Cargo.toml"; then if rg -q '(^|\s)full\s*=' "crates/augurs-$crate/Cargo.toml"; then echo "augurs-$crate: 'full' feature found" else echo "augurs-$crate: 'full' feature NOT found" fi else echo "augurs-$crate: No features section found" fi doneThis will help identify which subcrates need to be updated to support the 'full' feature.
17-17: Consider the implications of disabling documentationThe addition of
doc = falsedisables documentation generation for this crate. While this can speed up the build process and may be appropriate for Python bindings, it's important to consider the following:
- Ensure that disabling documentation doesn't negatively impact Rust developers who might need to work on these bindings.
- Verify that sufficient documentation is available elsewhere (e.g., in Python docstrings or separate documentation) for users of these Python bindings.
To ensure this change doesn't adversely affect the project's overall documentation, please run the following script:
This will help ensure that documentation is appropriately handled for both Rust and Python users of this crate.
Verification successful
Documentation Verification Passed
The
doc = falsesetting successfully disables the generation of external Rust documentation without removing existing Rust doc comments. Additionally, the presence ofREADME.mdensures that external documentation remains available.
- Rust Doc Comments: Present and intact in source files.
- External Documentation:
README.mdis available.- Python Documentation: No Python docstrings found. Consider adding docstrings to enhance Python bindings documentation.
Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Check for the presence of Python documentation and verify no Rust doc comments are present # Check for Python documentation echo "Checking for Python documentation:" rg -t py '"""' crates/pyaugurs # Verify no Rust doc comments are present echo "Checking for Rust doc comments that might be ignored:" rg -t rust '///' crates/pyaugurs # Check if there's a separate README or documentation file echo "Checking for separate documentation files:" fd -t f "(README|DOCUMENTATION)\.(md|rst|txt)" crates/pyaugursLength of output: 1711
Script:
#!/bin/bash # Description: Check for the presence of Python documentation and verify no Rust doc comments are present # Check for Python documentation echo "Checking for Python documentation:" rg -t py '"""' crates/pyaugurs # Verify no Rust doc comments are present echo "Checking for Rust doc comments that might be ignored:" rg -t rust '///' crates/pyaugurs # Check if there's a separate README or documentation file echo "Checking for separate documentation files:" fd -t f "(README|DOCUMENTATION)\.(md|rst|txt)" crates/pyaugursLength of output: 10910
crates/augurs/src/lib.rs (1)
1-36: Overall, excellent implementation of the convenience crate.This file successfully implements the main objectives of the PR by providing a well-structured convenience crate that re-exports other crates. The use of feature flags for conditional exports and the re-export of core components align perfectly with the goal of simplifying the process for consumers.
Key strengths:
- Clear and organized structure
- Effective use of documentation and compiler warnings
- Flexible inclusion of functionalities through feature flags
- Simplified access to core components
The suggested minor improvements (adding Clippy warnings, considering a macro for exports, and adding a comment for re-exports) can further enhance the code quality and clarity, but the current implementation is already solid and achieves the intended goals.
crates/augurs-ets/src/stat.rs (1)
35-36: LGTM! Verify the new import's functionality.The change from
assert_approx_eq::assert_approx_eqtoaugurs_testing::assert_approx_eqaligns with the PR objective of creating a convenience crate. This should simplify imports for users.To ensure the new import works as expected, please run the following script:
crates/augurs-testing/src/lib.rs (1)
Line range hint
1-46: Overall improvements to testing utilitiesThe changes in this file align well with the PR objectives of enhancing the augurs framework. The additions to
assert_all_closeand the newassert_within_pctmacro improve the robustness and utility of the testing framework. These changes will make it easier for users to write more reliable tests, contributing to the overall quality of the augurs ecosystem.crates/augurs/Cargo.toml (3)
1-10: LGTM: Package metadata is well-defined and consistent.The package metadata is correctly set up, using workspace-level values for consistency. This approach aligns well with the PR objective of creating an 'augurs' convenience crate.
22-24: LGTM: Dev-dependencies are appropriately defined.The dev-dependencies section is well-structured, using workspace-level versions for consistency. The inclusion of a dedicated testing crate ('augurs-testing') is a good practice for managing test utilities across the project.
1-37: Overall, excellent implementation of the 'augurs' convenience crate.This Cargo.toml file successfully implements the objectives outlined in the PR. The structure provides flexibility through optional dependencies and feature flags, while maintaining consistency with workspace-level values. The 'full' feature effectively simplifies imports for users who need all functionality.
Great job on addressing the PR tasks, particularly in figuring out how to enable nested feature flags (e.g., 'mstl-ets'). The implementation aligns well with the goal of enhancing user experience and reducing complexity in crate imports.
crates/augurs-js/src/clustering.rs (1)
27-27: LGTM! Verify consistency across codebase and documentation.The change from
augurs_clustering::Dbscantoaugurs_clustering::DbscanClustererappears to be a necessary adaptation to updates in the underlyingaugurs_clusteringcrate. This change maintains the public API of theDbscanstruct, which is good for backwards compatibility.To ensure consistency, please run the following script to check for any remaining references to the old type:
Please review the results to ensure that all necessary updates have been made consistently across the codebase and documentation.
Verification successful
Change Verified:
DbscanType Update ConsistentAll references to
augurs_clustering::Dbscanhave been successfully updated toaugurs_clustering::DbscanClustereracross the Rust codebase and documentation. No inconsistencies were found.Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Check for any remaining references to the old Dbscan type # Test: Search for old Dbscan type references rg --type rust "augurs_clustering::Dbscan" # Test: Search for new DbscanClusterer type references rg --type rust "augurs_clustering::DbscanClusterer" # Test: Check if the change is reflected in documentation rg --type markdown "Dbscan"Length of output: 1479
crates/augurs-clustering/README.md (2)
3-5: LGTM: Description is accurate and informative.The description clearly states the current state of the crate, mentioning that only DBSCAN is implemented and explaining the requirement for passing the distance matrix directly. The reference to
augurs-dtwis helpful for users.
Line range hint
27-41: Verify the accuracy of credits and license information.The credits and license information appear to be complete and appropriate. However, it's important to ensure that this information is still accurate and up-to-date, especially if there have been significant changes to the implementation.
Please confirm that:
- The implementation is still based on
linfa-clusteringandscikit-learn.- The dual-license (Apache License 2.0 and MIT) is still applicable to this crate.
If any changes are needed, please update this section accordingly.
crates/augurs-js/Cargo.toml (2)
2-2: LGTM: Package name updated appropriately.The package name has been updated from "augurs" to "augurs-js", which aligns well with the PR objectives of creating a convenience crate for JavaScript bindings.
Line range hint
10-10: Verify the intention behindpublish = false.The
publish = falseflag prevents this package from being published to crates.io. Is this intentional? If the package is meant to be used as a public JavaScript binding for the augurs library, you might want to consider removing this flag.crates/augurs-js/prepublish.js (3)
1-7: LGTM: Clear and informative comments.The added comments provide a concise and clear explanation of the script's purpose and functionality. They also reference relevant GitHub issues, which is helpful for understanding the context and reasons behind certain operations.
32-35: LGTM: Informative logging for snippets addition.The added logging provides clear feedback on whether the "snippets/" directory was added to the files array or if it already existed. This is helpful for understanding the state of the package.json file during the prepublish process.
41-42: LGTM: Proper file writing and success logging.The updated package.json is correctly written back to disk, and a clear success message is logged. This provides good feedback on the completion of the script's operations.
crates/augurs/README.md (2)
63-63: LGTM! The link to additional examples is helpful.Providing a link to more usage examples is valuable for users who want to explore the crate's capabilities further.
21-21: Ignore LanguageTool's punctuation suggestion.The static analysis tool flagged a potential punctuation issue, but the current format (colon followed by a newline and bullet point list) is a common and acceptable way to introduce a list in Markdown. No changes are necessary.
Tools
LanguageTool
[uncategorized] ~21-~21: Loose punctuation mark.
Context: ...functionality you need: -changepoint: changepoint detection -clustering: c...(UNLIKELY_OPENING_PUNCTUATION)
crates/pyaugurs/src/clustering.rs (1)
53-53: LGTM! Verify impact on codebase.The change from
augurs_clustering::Dbscantoaugurs_clustering::DbscanClustereris a good improvement in naming clarity. It aligns well with the PR objective of reorganizing and re-exporting crates.To ensure this change doesn't introduce any issues, please run the following script to check for any remaining references to the old type:
Verification successful
Verification Successful!
All references to
augurs_clustering::Dbscanhave been appropriately updated toaugurs_clustering::DbscanClusterer. There are no remaining usages of the oldDbscantype in the codebase.Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Check for any remaining references to the old Dbscan type # Test: Search for old Dbscan type usage rg --type rust "augurs_clustering::Dbscan" # Test: Search for potential import changes needed rg --type rust "use augurs_clustering::Dbscan"Length of output: 669
README.md (2)
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67-80: Approved: Added reference link for 'augurs' crateThe addition of the reference link for the new 'augurs' wrapper crate is appropriate and consistent with the existing format. This change aligns with the PR objectives and provides easy access to the crate's information.
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1-80: Overall: Excellent updates to README.mdThe changes made to the README.md file effectively communicate the introduction of the 'augurs' convenience crate and the expanded capabilities of the toolkit. The updates align well with the PR objectives, providing a clear and comprehensive overview of the project's components and their current status.
Key improvements:
- Updated project description to reflect the broader scope of functionality.
- Added the 'augurs' wrapper crate to the crate descriptions table.
- Updated status of 'augurs-clustering' and 'augurs-dtw' to beta.
- Added a reference link for the new 'augurs' crate.
These changes contribute to a more informative and up-to-date project documentation, which should help users better understand the toolkit's offerings and how to use them.
crates/augurs-clustering/src/lib.rs (6)
15-15: Approved: Improved struct namingThe renaming of
DbscantoDbscanClustererenhances code clarity by explicitly indicating that this struct implements a clusterer. This change adheres to Rust naming conventions and provides a more descriptive name for the struct's purpose.
20-20: Approved: Consistent impl block renamingThe impl block has been correctly updated to use the new
DbscanClusterername, maintaining consistency with the struct renaming. This change ensures that all associated methods remain properly linked to the renamed struct.
128-128: Approved: Consistent test case updateThe test case has been correctly updated to use the new
DbscanClusterername, maintaining consistency with the struct renaming. The functionality of the test remains unchanged, ensuring that the algorithm's behavior is still properly verified.
131-131: Approved: Consistent test case updateThis test case has also been correctly updated to use the new
DbscanClusterername, maintaining consistency across all test cases. The functionality of the test remains intact, ensuring comprehensive verification of the algorithm's behavior.
134-143: Approved: Comprehensive test suite updateAll remaining test cases have been consistently updated to use the new
DbscanClusterername. This comprehensive update ensures that:
- All tests are aligned with the new struct name.
- The functionality of each test case remains unchanged.
- The entire test suite maintains consistency and continues to verify the algorithm's behavior across various scenarios.
These changes demonstrate thorough attention to detail in maintaining the codebase.
158-158: Approved: Real-world test case consistently updatedThe real-world test case has been correctly updated to use the new
DbscanClusterername. This change is particularly important because:
- It maintains consistency with the struct renaming across all types of tests.
- It ensures that the algorithm's performance on practical, real-world scenarios continues to be validated.
- The functionality of this critical test case remains unchanged, preserving its value in verifying the algorithm's behavior with complex, realistic data.
Maintaining such comprehensive test coverage, including real-world scenarios, is crucial for ensuring the reliability and robustness of the clustering algorithm.
crates/augurs-js/src/outlier.rs (5)
70-71: LGTM! Consistent renaming in LoadedDetector enum.The change from
DBSCANDetectortoDbscanDetectorin the LoadedDetector enum is consistent with the previous renaming. The associated type for PreprocessedData is also correctly updated.
135-137: LGTM! Consistent renaming in OutlierDetector implementation.The change from
DBSCANDetectortoDbscanDetectorin the OutlierDetector implementation is consistent with the previous renaming. The method call towith_sensitivityis correctly updated.
214-214: LGTM! Consistent renaming in LoadedOutlierDetector implementation.The change from
DBSCANDetectortoDbscanDetectorin the LoadedOutlierDetector implementation is consistent with the previous renaming. The method call towith_sensitivityis correctly updated.
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1-338: Overall, the renaming is consistent and improves code quality.The renaming from
DBSCANDetectortoDbscanDetectorhas been applied consistently throughout the file, improving code consistency and adhering to Rust naming conventions. No functional changes were made to the code.To ensure a complete and correct implementation of this change:
- Verify that all related documentation (including comments, README files, and external documentation) has been updated to reflect the new naming.
- Check for any potential impacts on other parts of the codebase, especially any code that might be importing or using the
DBSCANDetector.- Update any tests that might be referencing the old naming.
Run the following script to check for any remaining instances of the old naming and potential documentation updates needed:
#!/bin/bash # Description: Check for remaining instances of old naming and potential documentation updates # Search for any remaining instances of DBSCANDetector in Rust files echo "Searching for remaining instances of DBSCANDetector in Rust files:" rg --type rust 'DBSCANDetector' # Search for any remaining instances of DBSCANDetector in documentation files echo "Searching for remaining instances of DBSCANDetector in documentation files:" rg --type md --type txt 'DBSCANDetector' # Search for any remaining instances of DBSCANDetector in test files echo "Searching for remaining instances of DBSCANDetector in test files:" rg --type rust --glob '**/tests/**' 'DBSCANDetector'
16-16: LGTM! Consistent naming convention applied.The renaming of
DBSCANDetectortoDbscanDetectoraligns with Rust naming conventions, improving code readability and maintainability.To ensure consistency across the codebase, run the following script:
crates/augurs-mstl/src/lib.rs (2)
17-17: LGTM: Public re-export ofstlrsmoduleThis change aligns with the PR objective of creating a convenience crate that re-exports other crates. It simplifies the import process for users by allowing them to access the
stlrsmodule directly through theaugurs-mstlcrate.
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299-315: Clarify rationale for comparing only 12 valuesThe addition of the comment explaining the origin of the expected values is helpful. However, it's not clear why only the first 12 values are being compared.
Could you please clarify:
- Why are only the first 12 values being compared?
- Is this sufficient for validating the model's accuracy?
- Are there any plans to expand this test to cover more values in the future?
This information will help future maintainers understand the reasoning behind this test case and its limitations.
crates/augurs-ets/src/ets.rs (2)
530-530: Approve import changes: Improved modularity and testing structureThe change to import
AIR_PASSENGERSdata andassert_approx_eqfromaugurs_testingaligns well with the PR objective of creating a convenience crate. This modification enhances modularity by centralizing test data and utilities, which can simplify testing across multiple crates in the project.
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530-581: Summary: Improved project structure with maintained functionalityThe changes in this file focus on reorganizing imports to use the new
augurs_testingcrate, which aligns well with the PR objective of creating a convenience crate. These modifications improve the project structure and potentially simplify testing across multiple crates.Importantly, the core ETS implementation remains unchanged, and the test assertions use the same values, indicating that the refactoring hasn't affected the model's behavior. This approach successfully maintains existing functionality while enhancing the overall project organization.
crates/augurs-ets/src/auto.rs (2)
630-635: Approved: Updated test assertions and data passing.The changes in the
air_passengers_fittest function look good:
- Removed the reference operator (
&) when passingAIR_PASSENGERSto thefitmethod.- Updated assertions to use
assert_within_pct!with a 1% tolerance.These changes are consistent with the updated import and likely improve the test's precision.
To ensure the removal of the reference operator doesn't have unintended consequences:
#!/bin/bash # Check the signature of the fit method rg "fn fit.*&\[f64\]" --type rust # Check for other usages of AIR_PASSENGERS to ensure consistency rg "AIR_PASSENGERS" --type rust
584-584: Approved: Updated assertion import for improved testing precision.The change from
assert_closeishtoassert_within_pctis a good improvement. This new assertion method likely provides better control over the acceptable margin of error in floating-point comparisons.To ensure consistency across the codebase, let's check if this change has been applied uniformly:
Verification successful
Verified: No remaining uses of
assert_closeishfound.All instances of
assert_closeishhave been successfully replaced withassert_within_pct, ensuring improved testing precision as intended.Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Check for any remaining uses of assert_closeish rg "assert_closeish" --type rustLength of output: 1836
crates/augurs-dtw/src/lib.rs (1)
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1-624: Overall, the changes look good and improve debugging capabilities.The addition of the
tracing::debugimport and its usage for logging parallel computations is a positive change that will aid in debugging. The rest of the file remains unchanged, maintaining its existing functionality. The suggestions for adding comments and consistent logging for both parallel and non-parallel cases are minor improvements that could enhance code readability and maintainability.crates/augurs-outlier/src/dbscan.rs (8)
46-46: Approved: Struct renamed to follow Rust naming conventions.The renaming of
DBSCANDetectortoDbscanDetectorimproves consistency with Rust naming conventions for structs (CamelCase). This change enhances code readability without altering the functionality.
53-53: Approved: Trait implementation updated to match struct renaming.The
OutlierDetectortrait implementation has been correctly updated to use the new struct nameDbscanDetector. This change maintains consistency with the struct renaming without altering the implementation's functionality.
64-64: Approved: Implementation block updated to match struct renaming.The implementation block for
DbscanDetectorhas been correctly updated to use the new struct name. This change maintains consistency with the struct renaming without altering any of the implemented methods or their functionality.
557-557: Approved: Test updated to use new struct name.The
test_tinyfunction has been correctly updated to use the new struct nameDbscanDetectorwhen calling thewith_sensitivitymethod. This change maintains consistency with the struct renaming without altering the test's functionality or assertions.
571-571: Approved: Test updated to use new struct name.The
test_syntheticfunction has been correctly updated to use the new struct nameDbscanDetectorwhen calling thewith_epsilonmethod. This change maintains consistency with the struct renaming without altering the test's functionality or assertions.
593-593: Approved: Test updated to use new struct name.The
test_realisticfunction has been correctly updated to use the new struct nameDbscanDetectorwhen calling thewith_sensitivitymethod. This change maintains consistency with the struct renaming without altering the test's functionality or assertions.
629-629: Approved: Tests updated to use new struct name.The
test_missing_data_at_start,test_no_cluster_band_small_eps, andtest_no_cluster_band_two_seriesfunctions have been correctly updated to use the new struct nameDbscanDetectorwhen calling thewith_epsilonmethod. These changes maintain consistency with the struct renaming without altering the tests' functionality or assertions.Also applies to: 647-647, 656-656
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46-656: Summary: Consistent renaming improves code quality without functional changes.The renaming of
DBSCANDetectortoDbscanDetectorhas been consistently applied throughout the file, including the struct definition, trait implementations, and test cases. This change improves code consistency and adheres to Rust naming conventions for structs.Key points:
- The renaming enhances code readability.
- No functional changes have been made to the implementation or tests.
- The change is unlikely to introduce new bugs or alter existing functionality.
Overall, this is a positive change that improves code quality without impacting the core functionality of the DBSCAN outlier detection algorithm.
crates/augurs-ets/src/model.rs (6)
1537-1540: Approval: Import changes improve test precision and readabilityThe replacement of
assert_approx_eqwithassert_within_pctfromaugurs_testingsuggests a move towards percentage-based comparisons in tests. This change may allow for more flexible assertions, especially when dealing with floating-point calculations. The splituse crate::modelimport improves code readability.
1566-1571: Approval: Enhanced test stability with percentage-based assertionsThe change from
assert_approx_eq!toassert_within_pct!with a 1% tolerance (0.01) for all assertions is a positive improvement. This adjustment allows for minor fluctuations in floating-point calculations, potentially reducing test flakiness while still ensuring the model's output remains within acceptable bounds. The consistent use of 1% tolerance across all assertions provides a standardized approach to test precision.
1581-1587: Approval: Consistent application of percentage-based assertionsThe changes in this segment mirror those in the previous test function, replacing
assert_approx_eq!withassert_within_pct!and applying a consistent 1% tolerance. This approach maintains consistency across the test suite and is particularly suitable for comparing floating-point values in model evaluation metrics. The uniform application of this change enhances the overall robustness of the test suite.
1659-1659: No visible changes in this lineThis line appears to be part of the model fitting process using the AIR_PASSENGERS dataset. While it's highlighted in the diff, there are no visible changes to the code on this specific line. Its inclusion might be due to surrounding changes or formatting adjustments.
1773-1773: No visible changes in this lineThis line, which appears to be fitting the model with the AIR_PASSENGERS dataset, is highlighted in the diff but shows no visible code changes. Its inclusion in the diff might be due to surrounding modifications or formatting adjustments in the broader context of the file.
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1-1787: Summary: Improved test robustness with percentage-based assertionsThe changes in this file primarily focus on enhancing the test module's robustness:
- Replaced
assert_approx_eq!withassert_within_pct!fromaugurs_testing.- Applied a consistent 1% tolerance across all modified assertions.
- Updated import statements to reflect these changes.
These modifications allow for minor fluctuations in floating-point calculations, potentially reducing test flakiness while maintaining accuracy. The standardized 1% tolerance across all assertions provides a uniform approach to test precision.
It's worth noting that the core functionality of the ETS model implementation remains unchanged, with modifications limited to the testing approach. This update improves the overall reliability of the test suite without altering the underlying model behavior.
Co-authored-by: coderabbitai[bot] <136622811+coderabbitai[bot]@users.noreply.github.com>
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🧹 Outside diff range and nitpick comments (3)
justfile (1)
13-16: Consider improving testability of excluded packagesWhile the exclusion of
augurs-jsandpyaugursfrom doctests is currently necessary and well-explained, it might be beneficial to consider ways to improve their testability in the future. This could involve:
- For
augurs-js: Investigating ways to compile it with all features enabled, or creating a subset of features that can be tested.- For
pyaugurs: If it's not published, consider adding meaningful doctests to improve its documentation and testability.These improvements could enhance the overall quality and maintainability of the project.
.github/workflows/rust.yml (2)
36-36: LGTM! Consider adding a comment explaining 'just'.The addition of 'just' to the bins parameter is appropriate given its usage in subsequent steps. This ensures that all necessary tools are installed as part of the CI setup.
Consider adding a brief comment explaining what 'just' is and why it's being added. This can help other developers understand the purpose of this tool in the workflow.
bins: cargo-nextest,just +# 'just' is a command runner for Rust projects, similar to 'make'
36-41: Consider adding documentation for the 'just' integration.The changes to introduce 'just' for running tests and doc tests are good improvements that should help standardize and simplify the CI process. However, to ensure all contributors understand this new approach, consider the following suggestions:
- Add a comment at the top of the workflow file explaining the use of 'just' and its benefits.
- Update the project's README or CONTRIBUTING.md file to explain the new 'just'-based workflow and how to use it locally.
- Ensure that the 'justfile' is well-documented and included in the repository.
These steps will help maintain consistency between local development and CI environments, and make it easier for new contributors to understand and work with the project's build and test processes.
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📒 Files selected for processing (5)
- .github/workflows/rust.yml (1 hunks)
- crates/augurs-js/Cargo.toml (2 hunks)
- crates/augurs-testing/src/lib.rs (2 hunks)
- crates/pyaugurs/Cargo.toml (1 hunks)
- justfile (1 hunks)
🚧 Files skipped from review as they are similar to previous changes (3)
- crates/augurs-js/Cargo.toml
- crates/augurs-testing/src/lib.rs
- crates/pyaugurs/Cargo.toml
🔇 Additional comments not posted (5)
justfile (3)
6-6: Approved: Consistent package naming with--out-name augursThe addition of
--out-name augursto thewasm-pack buildcommand is a good change. It ensures that the output package is consistently named "augurs", which aligns with the PR objective of creating a convenience crate. This change improves the consistency and clarity of the package naming process.
10-11: Approved: Comprehensive test target addedThe addition of the
testtarget is a valuable improvement. It usescargo nextestto run tests for all packages in the workspace with all features enabled. This approach ensures comprehensive testing, which is crucial for maintaining the reliability and usability of the 'augurs' crate and its components.
13-16: Approved: Doctest target added with appropriate exclusionsThe addition of the
doctesttarget is a good practice. It runs documentation tests for the workspace, ensuring that code examples in the documentation are accurate and functional. The exclusion ofaugurs-jsandpyaugursis well-explained in the comments..github/workflows/rust.yml (2)
41-41: LGTM! Verify the 'just doctest' recipe.The change from 'cargo test --doc' to 'just doctest' maintains consistency with the previous change and further simplifies the CI configuration.
To ensure the 'just doctest' command is correctly set up, please run the following script:
This script will help confirm that the 'doctest' recipe is properly defined in the justfile and includes the expected 'cargo test --doc' command.
✅ Verification successful
Verified: The
just doctestrecipe exists in the justfile and includes the expectedcargo test --doccommand with the appropriate flags.🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Verify the 'just doctest' recipe exists and contains the expected command. # Test: Check if the justfile exists and contains a 'doctest' recipe if [ -f justfile ]; then echo "justfile found. Checking for 'doctest' recipe..." grep -n "^doctest:" justfile -A 5 else echo "Error: justfile not found in the root directory." exit 1 fiLength of output: 449
39-39: LGTM! Verify the 'just test' recipe.The change from 'cargo nextest run' to 'just test' is a good move towards consistency and potentially simplifies the CI configuration.
To ensure the 'just test' command is correctly set up, please run the following script:
This script will help confirm that the 'test' recipe is properly defined in the justfile and includes the expected 'cargo nextest run' command.
✅ Verification successful
'just test' recipe verified successfully.
The
just testrecipe is correctly defined in the justfile and contains the expectedcargo nextest run --all-features --workspacecommand, ensuring consistency and reliability in the CI configuration.🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Verify the 'just test' recipe exists and contains the expected command. # Test: Check if the justfile exists and contains a 'test' recipe if [ -f justfile ]; then echo "justfile found. Checking for 'test' recipe..." grep -n "^test:" justfile -A 5 else echo "Error: justfile not found in the root directory." exit 1 fiLength of output: 415
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🧹 Outside diff range and nitpick comments (1)
crates/augurs-clustering/README.md (1)
Line range hint
9-25: LGTM: Updated usage exampleThe usage example has been correctly updated to reflect the renaming of
DbscantoDbscanClusterer. This change is consistent with the modifications mentioned in the AI-generated summary.Consider adding a brief comment explaining the meaning of the output
[-1, -1, -1, -1]in the assertion. This would help users understand what the clustering result represents, especially for those new to DBSCAN.
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📒 Files selected for processing (5)
- crates/augurs-clustering/README.md (2 hunks)
- crates/augurs-dtw/README.md (1 hunks)
- crates/augurs-forecaster/README.md (1 hunks)
- crates/augurs-mstl/README.md (1 hunks)
- crates/augurs-seasons/README.md (1 hunks)
🧰 Additional context used
Markdownlint
crates/augurs-clustering/README.md
1-1: Punctuation: '.'
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crates/augurs-dtw/README.md
1-1: Punctuation: '.'
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crates/augurs-forecaster/README.md
1-1: Punctuation: '.'
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crates/augurs-mstl/README.md
1-1: Punctuation: '.'
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crates/augurs-seasons/README.md
1-1: Punctuation: '.'
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🔇 Additional comments not posted (3)
crates/augurs-clustering/README.md (3)
1-6: LGTM: Clear and concise introductionThe title and introduction accurately describe the crate's purpose and current limitations. It's good that you mention the need for an external distance matrix calculation, as this sets clear expectations for users.
🧰 Tools
Markdownlint
1-1: Punctuation: '.'
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27-35: LGTM: Comprehensive credits sectionThe credits section properly acknowledges the sources of inspiration for this implementation and clearly explains the main difference in approach. This transparency is valuable for users and contributes to the open-source community.
🧰 Tools
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1-1: Punctuation: '.'
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37-41: LGTM: Clear licensing informationThe license section clearly states the dual-licensing under Apache License 2.0 and MIT License, which is standard for Rust projects and ensures wide compatibility.
🧰 Tools
Markdownlint
1-1: Punctuation: '.'
Trailing punctuation in heading(MD026, no-trailing-punctuation)
Apparently that's bad according to markdownlint.
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Actionable comments posted: 0
🧹 Outside diff range and nitpick comments (4)
crates/augurs/README.md (4)
1-7: Update badge links for theaugurscrateThe crates.io and docs.rs badges currently point to the
augurs-corecrate. Since this is the README for theaugurscrate, consider updating these badges to reflect the correct crate:-[](https://docs.rs/augurs-core) -[](https://crates.io/crates/augurs-core) +[](https://docs.rs/augurs) +[](https://crates.io/crates/augurs)This will ensure that users are directed to the correct documentation and crate page for
augurs.
8-31: LGTM! Consider adding a brief explanation of the 'full' feature flagThis section provides a clear overview of the
augurscrate and its features. The list of feature flags is comprehensive and aligns well with the PR objectives.To further improve clarity, consider adding a brief explanation of the 'full' feature flag, such as:
-Alternatively, use the `full` feature flag to enable all of the above. +Alternatively, use the `full` feature flag to enable all of the above features, providing access to the entire `augurs` ecosystem without needing to specify individual features.This addition would reinforce the convenience aspect of the 'full' feature flag, which is a key objective of this PR.
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33-61: LGTM! Consider adding comments to the code exampleThe "Getting started" section provides clear instructions and a relevant code example, which aligns well with the PR objectives. To further improve clarity, consider adding brief comments to the code example to explain each step. For instance:
// Create sample data let data = &[ 1.0, 1.2, 1.4, 1.5, 1.4, 1.4, 1.2, 1.5, 1.6, 2.0, 1.9, 1.8, 1.9, 2.0, ]; // Define seasonal periods (weekly seasonality for daily data) let periods = vec![7]; // Create a non-seasonal ETS model for the trend component let trend_model = AutoETS::non_seasonal().into_trend_model(); // Initialize the MSTL model let mstl = MSTLModel::new(periods, trend_model); // Fit the model to the data let fit = mstl.fit(data).unwrap(); // Generate forecasts for the next 10 time steps with 95% confidence interval let forecasts = fit.predict(10, 0.95).unwrap();These comments would help users understand the purpose of each step in the example, making it easier to adapt the code to their own use cases.
65-71: LGTM! Consider moving package links to a separate sectionThe license information is clear and appropriate for a Rust project. The links to Python and JavaScript packages are valuable for users working across multiple languages.
To improve the README's structure, consider moving the package links to a separate "Related Packages" section just before the license information. This would make it easier for users to find this cross-language information. For example:
## Related Packages - Python: [augurs on PyPI] - JavaScript: [augurs npm package] ## License Dual-licensed to be compatible with the Rust project. Licensed under the Apache License, Version 2.0 <http://www.apache.org/licenses/LICENSE-2.0> or the MIT license <http://opensource.org/licenses/MIT>, at your option. [augurs on PyPI]: https://pypi.org/project/augurs/ [augurs npm package]: https://www.npmjs.com/package/@bsull/augursThis reorganization would improve the overall structure and readability of the README.
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crates/augurs/README.md (1)
63-63: LGTM! Examples link is helpfulThe link to additional examples is a valuable resource for users who want to explore more complex use cases. The relative link ensures easy navigation within the repository.
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crates/augurs-clustering/README.md (2)
23-23: Updated DbscanClusterer instantiation with new parametersThe
DbscanClustererinstantiation has been correctly updated with the new class name and parameters. This change is consistent with the modifications in the distance matrix.Consider adding a brief comment explaining the meaning of the parameters (0.3 and 2) to improve the example's clarity for new users.
24-24: Updated assertion with new clustering resultThe assertion has been correctly updated to reflect the expected output from the new distance matrix and clustering parameters. The new result
vec![0, 0, 0, 1, 1]shows two distinct clusters, which is more informative than the previous result.Consider adding a brief comment explaining the meaning of the cluster labels (0 and 1) to improve the example's clarity for new users.
crates/augurs/README.md (3)
17-31: LGTM: Well-documented features with a minor suggestion.The explanation of the crate's purpose as a re-export hub is clear and helpful. The list of feature flags is comprehensive and well-documented. The mention of the
fullfeature flag is a convenient option for users who need all functionalities.Consider adding a brief description (1-2 words) for each feature flag to provide more context at a glance. For example:
- `changepoint`: changepoint detection algorithms - `clustering`: time series clustering algorithms - `dtw`: dynamic time warping distance calculation🧰 Tools
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33-72: LGTM: Clear instructions and comprehensive example.The "Getting started" section provides clear instructions for adding the crate to a project. The code example demonstrating MSTL forecasting is comprehensive and well-commented, covering key steps in the process.
Consider adding a brief explanation of the output format for the
forecastsvariable. This would help users understand what to expect from thepredictmethod. For example:// Generate forecasts for the next 10 values, with a 95% prediction interval. let forecasts = fit.predict(10, 0.95).unwrap(); // The `forecasts` variable now contains a vector of predicted values // along with their corresponding prediction intervals.
76-82: LGTM: Clear license information with a suggestion for reorganization.The license information is clear and compliant with Rust project standards, which is excellent.
Consider moving the links to PyPI and npm packages to a more appropriate section, such as right after the introduction or in a new "Related Projects" section. This would improve the overall structure of the README. For example:
# augurs - a time series toolkit for Rust [... introduction ...] ## Related Projects - [augurs on PyPI]: Python bindings for `augurs` functionality. - [augurs npm package]: JavaScript bindings using WASM. [... rest of the content ...] ## License [... license information ...] [augurs on PyPI]: https://pypi.org/project/augurs/ [augurs npm package]: https://www.npmjs.com/package/@bsull/augurs
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crates/augurs-clustering/README.md (2)
11-20: Improved usage example with updated class name and distance matrixThe changes in this section enhance the usage example:
- The class name has been updated from
DbscantoDbscanClusterer, which is more descriptive and consistent with Rust naming conventions.- The distance matrix values have been modified to better illustrate the clustering behavior.
These improvements make the example more clear and informative for users.
1-1: Remove trailing period from the titleTo adhere to Markdown best practices and resolve the Markdownlint warning, please remove the trailing period from the title.
Apply this change:
-# Time series clustering algorithms. +# Time series clustering algorithmscrates/augurs/README.md (2)
1-16: LGTM: Comprehensive introduction and project status.The introduction provides a clear overview of the
augurstoolkit and its capabilities. The inclusion of badges for CI/CD, documentation, and crate version is excellent for providing quick status information. The links to Python and JavaScript bindings are helpful for users working with multiple languages.
74-74: LGTM: Helpful link to additional examples.The inclusion of a link to more usage examples is beneficial for users who want to explore the crate's capabilities further.
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examples/clustering/Cargo.toml (2)
13-14: LGTM: Dependencies are correctly configured, with potential for enhancement.The
augursdependency is appropriately set up:
- Using the workspace version ensures consistency.
- Enabling "clustering" and "dtw" features is suitable for this example.
Consider the following suggestions:
- Evaluate if any additional dependencies are needed for a comprehensive example.
- The PR objectives mention nested feature flags. You might want to explore how to implement this for subcrates, if applicable to this example.
1-14: Overall, the Cargo.toml file is well-configured and aligns with the PR objectives.This new file successfully introduces the 'clustering' example package, which contributes to the PR's goal of simplifying the process for consumers. The package metadata and dependencies are appropriately set up, with room for potential enhancements as suggested in the previous comments.
To further improve this PR:
- Consider adding more examples to showcase different use cases of the
augurscrate.- Update the main README to mention this new example and provide instructions on how to run it.
- Ensure that this example is included in any CI/CD processes to verify it builds and runs correctly.
examples/outlier-detection/Cargo.toml (1)
13-14: LGTM: Dependency declaration is appropriate.The dependency on
augursis correctly configured:
- It uses the workspace version, ensuring consistency with the main project.
- The "outlier" feature is enabled, which is appropriate for this outlier detection example.
Consider adding a brief comment above the dependency to explain why the "outlier" feature is enabled. This can help future maintainers understand the purpose of this specific feature. For example:
[dependencies] # Enable the "outlier" feature for time series outlier detection functionality augurs = { workspace = true, features = ["outlier"] }Cargo.toml (1)
25-25: LGTM: Addition of 'augurs' convenience crate dependencyThe addition of the
augursdependency is in line with the PR objective of introducing a convenience crate that re-exports other crates. This change will simplify the import process for consumers of theaugursecosystem.The version and path are consistent with other
augurs-related dependencies, which is good for maintainability.For consistency with other dependencies, consider adding a comment or grouping this new dependency with the other
augurs-related ones. This could improve readability and organization of theCargo.tomlfile. For example:[workspace.dependencies] # Augurs ecosystem crates augurs = { version = "0.3.1", path = "crates/augurs" } augurs-changepoint = { version = "0.3.1", path = "crates/augurs-changepoint" } # ... (other augurs crates) # Third-party dependencies distrs = "0.2.1" # ... (other third-party dependencies)examples/clustering/examples/dbscan_clustering.rs (3)
12-20: Appropriate example dataset with clear explanationThe
SERIESconstant provides a suitable example dataset for demonstrating the DBSCAN clustering algorithm. The comment accurately describes the nature of the dataset, which helps readers understand the expected clustering results.Consider adding a brief comment above each sub-slice to indicate which cluster it belongs to (e.g., "// Cluster 1", "// Cluster 2", "// Noise"). This would further enhance the readability and educational value of the example.
22-42: Well-configured DTW with clear explanationsThe Dynamic Time Warping (DTW) configuration demonstrates various options available in the
augurscrate. Each option is accompanied by a helpful comment, making the code both educational and easy to understand.To further improve the example's educational value, consider adding a brief comment explaining why you chose these specific values for the DTW options (e.g., window size, lower and upper bounds, max distance). This would help readers understand the reasoning behind these choices in the context of the example dataset.
44-53: Clear DBSCAN parameter setup and clusteringThe DBSCAN parameters (epsilon and minimum cluster size) are well-defined and explained with helpful comments. The clustering is performed correctly using the
DbscanClustererfrom theaugurscrate.To make the example more robust and educational, consider adding a brief explanation of how changing these parameters might affect the clustering results. This would help readers understand the impact of these parameters on the DBSCAN algorithm.
examples/outlier-detection/examples/dbscan_outlier_detection.rs (4)
11-17: LGTM: Clear example data with explanatory comment.The
SERIESconstant provides a good example of input data, including an outlier series. The comment effectively explains the nature of the outlier in the third series.Consider adding a type annotation to the
SERIESconstant for improved clarity:-const SERIES: &[&[f64]] = &[ +const SERIES: &[&[f64]; 3] = &[This change explicitly specifies the number of inner slices, which can help prevent accidental modifications to the data structure.
19-41: LGTM: Clear detector initialization and preprocessing.The initialization of the
DbscanDetectorwith sensitivity and parallelization is well-implemented and clearly explained. The preprocessing step is concise and includes proper error handling.Consider adding a brief comment explaining why the alternative preprocessing method (lines 39-41) is commented out. This can provide context for future readers or maintainers. For example:
// Note: Alternative preprocessing method using column-major data. // Uncomment and use this if your data is in column-major format. // let preprocessed = augurs::outlier::DbscanData::from_column_major(TRANSPOSED_SERIES);
43-54: LGTM: Clear outlier detection and result verification.The outlier detection process and result verification are well-implemented. The assertions effectively check the expected outcomes, and the comments provide good explanations of the detection results.
Consider extracting the assertion logic into a separate function for improved readability and reusability. This can make the main function more concise and allow for easier testing of the detection results. For example:
fn verify_detection_results(outliers: &OutlierDetectionResult) { assert_eq!(outliers.outlying_series.len(), 1); assert!(outliers.outlying_series.contains(&2)); assert_eq!(outliers.series_results.len(), 3); assert!(outliers.series_results[2].is_outlier); assert_eq!(outliers.series_results[2].scores, vec![0.0, 0.0, 1.0, 1.0]); } // In the main function: verify_detection_results(&outliers);This refactoring would make the main function more focused on the detection process itself and separate the verification logic.
1-55: LGTM: Comprehensive example demonstrating DBSCAN outlier detection.This example effectively demonstrates the usage of the DBSCAN outlier detection algorithm using the
augurscrate. It covers the entire process from initialization to result verification, providing a clear and concise guide for users.To further enhance the example and align with the PR objectives, consider adding a brief section demonstrating how to use the 'full' feature flag mentioned in the PR description. This could include:
- A comment explaining how to enable the 'full' feature in
Cargo.toml.- An example of how imports might differ when using the 'full' feature.
This addition would showcase the convenience aspect of the
augurscrate and provide users with a complete picture of its capabilities.
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examples/clustering/Cargo.toml (1)
1-11: LGTM: Package metadata is well-configured.The package metadata is appropriately set up for an example crate:
- Utilizing workspace-level configuration ensures consistency.
- Setting
publish = falseis correct for an example that shouldn't be published.- The description accurately conveys the purpose of the example.
examples/outlier-detection/Cargo.toml (1)
1-11: LGTM: Package metadata is well-configured.The package metadata is appropriately set up:
- Common fields (license, authors, documentation, repository, version, edition, keywords) use workspace values, ensuring consistency.
- The package is correctly marked as non-publishable, which is suitable for an example.
- The name and description are specific to this example package.
This configuration aligns well with the PR objectives of creating a convenience crate with examples.
Cargo.toml (2)
3-4: LGTM: Addition of examples to workspace membersThe inclusion of "examples/*" in the workspace members is a positive change. This aligns with the PR objective of adding an examples crate to the workspace. Including examples in the workspace can be beneficial for:
- Easier testing and validation of the main crate's functionality
- Providing clear, runnable documentation for users
- Ensuring that examples are kept up-to-date with the main crate
The use of the wildcard "*" allows for multiple example crates, which can showcase different use cases or features of the
augurscrate.
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1-67: Summary: Changes align well with PR objectivesThe modifications to
Cargo.tomleffectively support the PR's goal of introducing the 'augurs' convenience crate:
- Adding "examples/*" to workspace members facilitates the inclusion of example projects, enhancing documentation and testing capabilities.
- Including the
augursdependency enables the re-export functionality, simplifying the import process for users.These changes contribute to improving the usability of the 'augurs' crate and provide a more straightforward integration process for users, as outlined in the PR objectives.
The existing configuration, including workspace settings, package metadata, and other dependencies, appears appropriate for the project's needs.
examples/clustering/examples/dbscan_clustering.rs (1)
1-10: Well-structured file header and appropriate importsThe file begins with a clear and informative header comment that effectively explains the purpose and methodology of the example. The import statement is concise and imports the necessary components from the
augurscrate.examples/outlier-detection/examples/dbscan_outlier_detection.rs (1)
1-9: LGTM: Clear documentation and correct import usage.The file-level documentation provides a concise explanation of the DBSCAN algorithm and its use case for outlier detection. The import statement correctly uses the
augurscrate, which aligns with the PR objective of creating a convenience crate.
| assert_eq!(clusters, vec![0, 0, 1, 1, -1]); | ||
| } |
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🛠️ Refactor suggestion
Consider enhancing the output of clustering results
While the assertion is useful for verifying the expected clustering results, it might be more informative for users to see the actual output.
Consider adding print statements to display the clustering results before the assertion. This would make the example more interactive and help users understand the output more clearly. For example:
println!("Clustering results: {:?}", clusters);
println!("Expected results: {:?}", vec![0, 0, 1, 1, -1]);
assert_eq!(clusters, vec![0, 0, 1, 1, -1]);This change would allow users to see the actual clustering output and compare it with the expected results, enhancing the educational value of the example.
Also use new ? syntax for feature flags of optional deps, which means we can get rid of the 'mstl-ets' feature flag.
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🧹 Outside diff range and nitpick comments (4)
crates/augurs/README.md (3)
17-31: LGTM: Clear explanation of feature flags and re-exports.This section effectively communicates the crate's purpose as a central access point for the
augursecosystem, which aligns perfectly with the PR objectives. The list of feature flags provides users with the flexibility to include only the functionality they need, and the 'full' flag offers a convenient way to enable all features.Consider adding a brief explanation of the
parallelfeature flag, similar to the descriptions provided for other flags. This would help users understand its purpose and when they might want to enable it.🧰 Tools
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33-72: LGTM: Clear instructions and comprehensive example.The "Getting started" section provides clear instructions for adding the crate to a project and includes a detailed code example that demonstrates the use of multiple features. This aligns well with the PR objective of simplifying the process for consumers.
Consider adding a brief comment in the code example to explain the purpose of each step, especially for more complex operations like creating the trend model and initializing the MSTL model. This would further enhance the example's educational value for new users.
76-82: LGTM: Clear license information and useful links.The license information is clearly stated, and the inclusion of links to the PyPI and npm packages is helpful for users of other languages.
Consider moving the links to the PyPI and npm packages to a separate "Related Projects" or "Ecosystem" section. This would make it easier for users to find this information and separate it from the license details.
crates/augurs-outlier/src/dbscan.rs (1)
86-90: Approved: Method chaining support added toparallelize.The modification of the
parallelizemethod to takeselfby value and returnSelfis a good improvement. This change allows for more fluent method chaining, which is consistent with Rust's builder pattern and provides a more ergonomic API.Consider updating the method documentation to reflect that it now supports method chaining. You could add a simple example like this:
/// Parallelize the DBSCAN algorithm. /// /// This requires the `parallel` feature to be enabled, otherwise it will be ignored. /// /// # Example /// /// ``` /// use augurs_outlier::DbscanDetector; /// /// let detector = DbscanDetector::with_epsilon(1.0) /// .parallelize(true); /// ``` pub fn parallelize(mut self, parallelize: bool) -> Self { // ... (existing implementation) }
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crates/augurs/README.md (2)
1-16: LGTM: Comprehensive introduction and project status.The introduction effectively summarizes the
augurstoolkit and its main functionalities. The inclusion of badges for CI/CD, documentation, and crate version provides valuable information about the project's status. The references to Python and JavaScript bindings are helpful for users of other languages.
74-74: LGTM: Useful link to additional examples.The inclusion of a link to additional examples in the repository is helpful for users who want to explore more complex use cases. This aligns well with the PR objective of improving usability and providing a smooth experience for users.
crates/augurs-outlier/src/dbscan.rs (3)
53-53: LGTM: Implementation updated to match struct renaming.The
OutlierDetectortrait implementation has been correctly updated to use the new struct nameDbscanDetector. This change is consistent with the struct renaming and ensures that the trait is still properly implemented for the renamed struct.
64-64: LGTM: Implementation block updated to match struct renaming.The implementation block has been correctly updated to use the new struct name
DbscanDetector. This change ensures that all associated functions and methods remain properly linked to the renamed struct.
560-560: LGTM: Test cases updated to use the new struct name.All test cases have been correctly updated to use the new struct name
DbscanDetector. This ensures that the tests remain valid and consistent with the renamed struct. The changes have been applied consistently across all relevant test functions.Also applies to: 574-574, 596-596, 632-632, 650-650, 659-659
This should make it easier for consumers, so they don't have to
figure out which crates to import; they can just enable the
'full' feature flag to get started.
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New Features
Improvements
DBSCANDetectortoDbscanDetector.Cargo.tomlfiles to disable documentation generation and testing features for certain crates.assert_within_pctmacro for improved assertion accuracy in tests.Bug Fixes
augurs-clusteringandaugurs-dtwcrates from "alpha" to "beta," indicating improved stability.