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cfe-lab / MiCall

Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C
https://cfe-lab.github.io/MiCall
GNU Affero General Public License v3.0
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Bump seaborn from 0.12.2 to 0.13.2 #1061

Closed dependabot[bot] closed 8 months ago

dependabot[bot] commented 8 months ago

Bumps seaborn from 0.12.2 to 0.13.2.

Release notes

Sourced from seaborn's releases.

v0.13.2 (January 2024)

This is a minor release containing internal changes that adapt to upcoming deprecations in pandas. All users are encouraged to update.

v0.13.1 (December 2023)

This is a minor release with some bug fixes and a couple new features. All users are encouraged to update.

  • |Feature| Added support for weighted mean estimation (with boostrap CIs) in lineplot, barplot, pointplot, and objects.Est (#3580, #3586).

  • |Feature| Added the extent option in objects.Plot.layout (#3552).

  • |Fix| Fixed a regression in v0.13.0 that triggered an exception when working with non-numpy data types (#3516).

  • |Fix| Fixed a bug in objects.Plot so that tick labels are shown for wrapped axes that aren't in the bottom-most row (#3600).

  • |Fix| Fixed a bug in catplot where a blank legend would be added when hue was redundantly assigned (#3540).

  • |Fix| Fixed a bug in catplot where the edgecolor parameter was ignored with kind="bar" (#3547).

  • |Fix| Fixed a bug in boxplot where an exception was raised when using the matplotlib bootstrap option (#3562).

  • |Fix| Fixed a bug in lineplot where an exception was raised when hue was assigned with an empty dataframe (#3569).

  • |Fix| Fixed a bug in multiple categorical plots that raised with hue=None and dodge=True; this is now has no effect (#3605).

v0.13.0 (September 2023)

See the online docs for an annotated version of these notes with working links.

This is a major release with a number of important new features and changes. The highlight is a major overhaul to seaborn's categorical plotting functions, providing them with many new capabilities and better aligning their API with the rest of the library. There is also provisional support for alternate dataframe libraries like polars, a new theme and display configuration system for objects.Plot, and many smaller bugfixes and enhancements.

Updating is recommended, but users are encouraged to carefully check the outputs of existing code that uses the categorical functions, and they should be aware of some deprecations and intentional changes to the default appearance of the resulting plots (see notes below with and tags).

Major enhancements to categorical plots

Seaborn's categorical functions <categorical_api> have been completely rewritten for this release. This provided the opportunity to address some longstanding quirks as well as to add a number of smaller but much-desired features and enhancements.

Support for numeric and datetime data

The categorical functions have historically treated all data as categorical, even when it has a numeric or datetime type. This can now be controlled with the new native_scale parameter. The default remains False to preserve existing behavior. But with native_scale=True, values will be treated as they would by other seaborn or matplotlib functions. Element widths will be derived from the minimum distance between two unique values on the categorical axis.

Additionally, while seaborn previously determined the mapping from categorical values to ordinal positions internally, this is now delegated to matplotlib. The change should mostly be transparent to the user, but categorical plots (even with native_scale=False) will better align with artists added by other seaborn or matplotlib functions in most cases, and matplotlib's interactive machinery will work better.

Changes to color defaults and specification

The categorical functions now act more like the rest of seaborn in that they will produce a plot with a single main color unless the hue variable is assigned. Previously, there would be an implicit redundant color mapping (e.g., each box in a boxplot would get a separate color from the default palette). To retain the previous behavior, explicitly assign a redundant hue variable (e.g., boxplot(data, x="x", y="y", hue="x")).

Two related idiosyncratic color specifications are deprecated, but they will continue to work (with a warning) for one release cycle:

  • Passing a palette without explicitly assigning hue is no longer supported (add an explicitly redundant hue assignment instead).
  • Passing a color while assigning hue to produce a gradient is no longer supported (use palette="dark:{color}" or palette="light:{color}" instead).

... (truncated)

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codecov[bot] commented 8 months ago

Codecov Report

All modified and coverable lines are covered by tests :white_check_mark:

Project coverage is 88.07%. Comparing base (9dcad8e) to head (4697d19).

Additional details and impacted files ```diff @@ Coverage Diff @@ ## master #1061 +/- ## ======================================= Coverage 88.07% 88.07% ======================================= Files 29 29 Lines 7156 7156 ======================================= Hits 6303 6303 Misses 853 853 ```

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Donaim commented 8 months ago

@dependabot rebase