NEWS.md

In crestr: A Probabilistic Approach to Reconstruct Past Climates Using Palaeoecological Datasets

crestr 1.2.1

• Getting rid of one warning in export()
• Replacing epsg:4326 by +proj=longlat +datum=WGS84 +no_defs to potentially avoid bugs when plotting maps (problem ultimately related to latest version of gdal and proj)
• Problem of non-recorded taxa in selectedtaxa caused the final plots to crash. they are now excluded and set a value of -2.
• Adding a CRAN-compatible way of dealing with failed online connections (includes checking if is.crestObj(x) in every function).
• Minor corrections
  • Removing unnecessary prints
  • Improved documentation

crestr 1.2.0

• Removing some unnecessary debugging prints
• Adapting the crestr reference
• Adding a check on the column names of PSE
• Fastening the LOO function
• Adding a sorting parameter to the LOO() function
• Adding the pdf_ranges() function.
  • Also included as an invisible output of the plot_violinPDFs()
• Adding the plot.scatterPDFs() graphical output.
• Adding taxonComposition() to get the size distribution of the composing species.
• Minor bugs fixed
  • If no distributions are extracted, the calibration could be used.
  • combinedPDFs() could bug if only one variable
  • Filters by elevation added to getClimateSpace()
  • print(ntaxa) was 1 off
  • Minor naming issues with export()
  • plot_climateSpace() and plot_taxaCharacteristics() were issuing a warning when no climate values are available and add_modern is TRUE (coordinates are available but no climate)

crestr 1.1.0

• crestr is now compatible with the SQLite3 gbif4crest database. It is therefore usable offline.
  • Access: https://figshare.com/articles/dataset/GBIF_for_CREST_database/6743207

crestr 1.0.3

• Fixing minor bugs, including:
  • If the climate field didn't match the column names of selectedTaxa, some functions were crashing (at least plot_climateSpace) because no distribution data were extracted.
  • Checks to ensure the column names of climate_space and distributions are correct for crest.set_modern_data()
  • Check to ensure the selectedTaxa has default values for all selected variables.

crestr 1.0.2

• Replaced class(dat) == 'RasterLayer' by inherits(dat, 'RasterLayer')

• Improved documentation

crestr 1.0.1

• Minor bugs fixed on the plots

  • Title of the LOO plot adapted from 'variable name [unit]' to 'Leave-one-out anomalies for\nvariable name [unit]'
  • Title of stratigraphic diagrams can spread across many lines now
  • The thickness of the lines on the samplePDFs plot has been revised to show a greater range.
  • Labels added to the y-axes on the histograms of the climate space plot.
  • Labels added to the y-axis of the histograms and pdf plots of the taxaCharacteristics figure.
  • Adding caption on LOO diagram (+ and - anomalies)
  • Fixing title problem on plot_diagram()
  • Adding a colouring option for hiatus(es) on plot.crestObj()
  • Fixed problem of opening empty plotting windows when exporting the figures to files
  • Changing default value for bar_width in plot_loo() and plot_diagram()

• Replacing the parameter fullPosterior by fullUncertainties in export().

• Typos in the documentation have been fixed.

• The text of the vignettes was updated to reflect changes in the manuscript. Nothing really significant.

• Fixing bug related to ai.sqrt in crest.get_modern_data(). Only the climate space data were transformed.

• Excluding all the distribution grid cells without any climate data.

crestr 1.0.0

• Release of the first stable version of crestr

crestr 0.0.0.9000

• Added a NEWS.md file to track changes to the package.

crestr documentation built on Jan. 6, 2023, 5:23 p.m.