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Changelog

Source: NEWS.md

austraits 4.0.0

  • austraits is now the AusTraits-specific layer over traits.use, which holds the generic code for any traits.build database (austraits#188). The code and its history moved there; austraits keeps load_austraits(), get_versions(), get_version_latest(), the Getting Started vignette and the map of Australia used by plot_locations().
  • Every function exported by traits.use is re-exported, so austraits::extract_trait() and the other functions keep working. This includes the new load_database(), join_sources() and get_references() (the references the data cite, as text or BibTeX); see the traits.use NEWS for the changes since 3.1.1 (e.g. sources can be looked up by key with $, and support for databases built with traits.build 2.3).
  • load_austraits() finds the release and loads it with traits.use::load_database(), taking the release’s file list from austraits.json, so update = FALSE loads a cached release offline, including a cache made by austraits 3.x: a cached file is reused only when it matches the release’s md5 checksum, a failed download no longer leaves a partial file, and sources get the traits_build_sources class.
  • New from traits.use: plot_trait_distribution_jitter(), plot_categorical_trait_distribution() and plot_trait_distribution(), faster plots from austraits.portal. plot_trait_distribution_beeswarm() is removed: use plot_trait_distribution_jitter() or plot_trait_distribution().
  • plot_locations() calls traits.use::plot_locations() with the map of Australia by default; basemap also takes NULL (no map) or another map as a data frame of cells (x, y).
  • Requires R 4.1.0 or later. lubridate is no longer needed.
  • Fix bug in plot_locations that silently left out locations east of 153°E (Brisbane, the Gold Coast, Byron Bay) and north of 9.5°S (Torres Strait), about 2% of AusTraits 5.0.0 records with coordinates. Locations beyond the map of Australia are now reported in a message. The new argument basemap = NULL draws every location without the map, for databases from outside Australia. ... is now passed on to geom_pointdensity(), and feature = NA works.

austraits 3.1.1

  • Fix bug in function load_austraits that was preventing it from loading austraits.build v.7.0.0, as both relational and flattened database versions are now on Zenodo. For now, ignoring flattened data table.

austraits 3.1.0

  • Change functions to work with traits.build databases that include an identifiers table (or ones that don’t)

austraits 3.0.2

  • Updated dependencies, placing graphics related packages in Suggests
  • Added internal function to check the compatibility of databases
  • Added internal function notify users that some database versions will not be supported
  • The following functions will no longer support AusTraits version < 5.0.0:
    • extract_*
    • trait_pivot_wider
    • join_*
    • plot_site/locations
    • plot_trait_beeswarm
    • as_wide_table
  • trait_pivot_longer is deprecated
  • summarise_trait_means will trigger warning due to uninformed calculations
  • Added new function extract_data
  • Added new function bind_databases
  • Added new function flatten_databases
  • Updated print function print.traits.build - thanks @Rekyt!