Version 2.1.3

8 Oct 2024

• Added objects sofiaColors, sofiaDarkblue, sofiaBlue, and sofiaOrange.

• Added arguments 'width' and 'col' to plotCat() to override default style.

• Improved stylistic elements in plotCat(): y-axis order, barplot series order, horizontal spacing, and colors.

Version 2.1.2

19 May 2023

• Changed addDriors() so it raises an error if the priors table column 'terminal_state_cv' contains NA values.

• Changed gitClone() so it recognizes repository names starting with "20**Anything" and "Workshop".

Version 2.1.1

15 Nov 2022

• Removed dependency on areaplot package.

Version 2.1.0

12 Nov 2022

• Added function addIndex() to add index column to catch data.

• Added plotCat() 'type' option "prop" to draw a proportional area plot. Dropped legacy support for 'type' option "all".

• Improved addDriors() so it passes 'shape_prior' and 'growth_rate_prior_cv' to format_driors().

Version 2.0.0

8 Aug 2022

• Added functions gitRepos(), gitClone(), and gitCloneAll() to list and clone GitHub repositories.

• Dropped legacy support for 'stocks.combined' in addDriors() and addEffort().

• Added errors and warnings if stock names in catch/effort/priors don't match.

• Simplified addDriors() so it requires only the 'stock' name, not the 'taxa' name. These names used to be identical, but only 'stock' will be used from now on.

• Improved plotCat() so it treats the first two columns of the input data frame as stock and year.

• Renamed plotCat() 'type' options to "count" and "stock".

Version 1.2.1

22 May 2022

• Renamed argument 'stocks.combined' to 'same.priors' in addDriors().

• Renamed argument 'stocks.combined' to 'same.effort' in addEffort().

• The old argument name 'stocks.combined' is still supported in both addDriors() and addEffort() for backward compatibility. The new argument names 'same.priors' and 'same.effort' should be used in new SOFIA scripts.

Version 1.2.0

25 Feb 2022

• Added function convertData() to convert primary data to combined data.

• Improved groupData() so it exits gracefully when no CSV files are found. Furthermore, it always creates a new set of empty subdirectories for the output before copying files.

Version 1.1.0

20 Feb 2022

• Added function groupData() to group primary data in subdirectories.

Version 1.0.3

14 Feb 2022

• Improved addDriors() so effort data are passed to format_driors().

Version 1.0.2

24 Jan 2022

• Initial release