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Update Description and add image alt text #322

Merged
merged 15 commits into from
Aug 13, 2024
Merged

Update Description and add image alt text #322

merged 15 commits into from
Aug 13, 2024

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zachmayer
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coderabbitai bot commented Aug 13, 2024

Walkthrough

The recent changes to the caretEnsemble R package include updates to metadata, performance metrics, and documentation. Key modifications involve enhancing the .Rbuildignore to exclude the lib/ directory, updating author contact information, and revising URLs for better accessibility. Additionally, model performance metrics were adjusted, and the documentation was improved with new examples and formatting. These updates aim to streamline the package's build process and enhance user experience.

Changes

File Change Summary
.Rbuildignore Added lib/ to ignore the directory during package builds.
DESCRIPTION Updated version to 4.0.0, corrected author email, and revised URLs for improved access.
Makefile Modified check-win to remove lib/, and adjusted clean to remove the entire man/ directory.
README.md, README.rmd Updated model performance metrics, including RMSE values and ensemble weights; added examples for visualization.
_pkgdown.yml Enhanced UI with new parameters for light/dark themes, styles, and OpenGraph metadata.
inst/WORDLIST Added new terms: dat, rf, and setosa.
man/caretEnsemble.Rd Added a new URL and corrected author email.
vignettes/Version-4.0-New-Features.Rmd, vignettes/caretEnsemble-intro.Rmd Enhanced presentation of predictions and variable importance; improved formatting using knitr::kable.

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Actionable comments posted: 0

Review details

Configuration used: .coderabbit.yaml
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 280eab5 and 0f45a8a.

Files ignored due to path filters (5)
  • man/figures/README-greedy-stack-6-plot-1.png is excluded by !**/*.png
  • man/figures/README-unnamed-chunk-2-1.png is excluded by !**/*.png
  • man/figures/README-unnamed-chunk-3-1.png is excluded by !**/*.png
  • man/figures/README-unnamed-chunk-4-1.png is excluded by !**/*.png
  • man/figures/README-unnamed-chunk-5-1.png is excluded by !**/*.png
Files selected for processing (10)
  • .Rbuildignore (1 hunks)
  • DESCRIPTION (1 hunks)
  • Makefile (2 hunks)
  • README.md (4 hunks)
  • README.rmd (1 hunks)
  • _pkgdown.yml (1 hunks)
  • inst/WORDLIST (2 hunks)
  • man/caretEnsemble.Rd (2 hunks)
  • vignettes/Version-4.0-New-Features.Rmd (3 hunks)
  • vignettes/caretEnsemble-intro.Rmd (3 hunks)
Files skipped from review due to trivial changes (4)
  • .Rbuildignore
  • DESCRIPTION
  • inst/WORDLIST
  • man/caretEnsemble.Rd
Additional comments not posted (17)
_pkgdown.yml (2)

4-9: UI Customization Enhancements Look Good.

The addition of light-switch and bslib settings enhances the user interface customization options for the documentation site. These changes are well-structured.


10-13: Social Media Metadata Enhancements Look Good.

The opengraph section adds valuable metadata for social media sharing, and the alt text improves accessibility.

vignettes/Version-4.0-New-Features.Rmd (4)

2-2: Title Format Update Looks Good.

The title change to "Version 4.0 New Features" is clearer and aligns with standard formatting practices.


50-54: Plot Descriptions Enhance Clarity.

The added descriptions for the plots provide valuable context and improve the reader's understanding of the visual data.


136-136: Output Presentation Improvement Looks Good.

Using knitr::kable for formatting predictions in markdown enhances readability and presentation quality.


143-143: Rounding of Variable Importance Values Looks Good.

Rounding the importance values to two decimal places enhances clarity and consistency in the presentation.

Makefile (2)

102-102: Enhanced Cleanup in check-win Target Looks Good.

The addition of the command to remove the lib/ directory ensures a clean environment, preventing interference from previous library files.


154-154: Comprehensive Cleanup in clean Target Looks Good.

Replacing the removal of *.Rd files with the entire man/ directory ensures a thorough cleanup, reducing the risk of stale files affecting subsequent operations.

README.rmd (2)

63-68: LGTM! Improved documentation with ggplot2::autoplot.

The addition of ggplot2::autoplot for ensemble diagnostics, along with detailed descriptions and alt text, enhances the documentation's clarity and accessibility.


70-70: LGTM! Consistent formatting for rf_stack plotting.

The reformatting of the rf_stack model plotting code block ensures consistency with the newly introduced format for greedy_stack.

README.md (4)

117-129: LGTM! Enhanced descriptions and alt text for ggplot2::autoplot.

The updated descriptions and alternative text for the ggplot2::autoplot visualizations improve clarity and accessibility.


70-81: Verify updated metrics for the ensemble model.

The RMSE and weights for the ensemble model have been updated. Ensure these changes are consistent with the underlying data and calculations.


49-52: Verify updated RMSE values for rf and glmnet models.

The RMSE values have been updated. Ensure these changes are consistent with the underlying data and calculations.


Line range hint 101-115:
Verify updated metrics for the rf_stack model.

The RMSE and other performance metrics for the rf_stack model have been updated. Ensure these changes are consistent with the underlying data and calculations.

vignettes/caretEnsemble-intro.Rmd (3)

52-52: LGTM! Improved readability with knitr::kable.

The use of knitr::kable to format prediction output enhances readability by converting raw output into a markdown table format.


74-74: LGTM! Enhanced accessibility with fig.alt attribute.

The addition of a fig.alt attribute provides alternative text for accessibility, improving the usability of the documentation for users relying on screen readers.


103-104: LGTM! Improved readability with knitr::kable.

The use of knitr::kable to format prediction output enhances readability by converting raw output into a markdown table format.

@zachmayer zachmayer merged commit 4b1dc87 into main Aug 13, 2024
13 checks passed
@zachmayer zachmayer deleted the desc branch August 13, 2024 15:49
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