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Changelog

Source: NEWS.md

chronosphere 0.6.1 - 2023-08-17

CRAN release: 2023-08-17

DOI

Changed

  • The examples included in the package were malformatted. The examples were corrected.

chronosphere 0.6.0 - 2023-08-14

CRAN release: 2023-08-14

DOI

Changed

  • IMPORTANT: Dataset identifier coordinates were changed: dat -> src, var -> ser. This reflects changes of the database that were necessary so formal variables can be introduced.

chronosphere 0.5.0 - 2023-05-23

CRAN release: 2023-06-13

DOI

Added

  • the configure() function to support setting of global variables: curl, timeout and remote (debugging)
  • 'tinytest' - dependencies
  • 'curl' as suggest, curl support for datasets() and fetch()
  • new example data to show the use of datadir

Removed

  • plate tectonic reconstruction-related functionality to package 'rgplates'
  • Spatial and RasterArrays refactored into package 'via'
  • shaper() function, color palettes() to 'restools' (to be published soon)

chronosphere 0.4.1 - 2021-04-16 (build 80)

CRAN release: 2021-04-18

DOI

Added

  • added the platemodel example to the package’s files
  • fixed wrong example

chronosphere 0.4.0 - 2020-10-18 (build 79 - CRAN submission take 2)

CRAN release: 2020-10-20

Added

  • vignette url fix

chronosphere 0.4.0 - 2020-10-18 (build 78 - Initial CRAN submission)

CRAN release: 2020-10-20

Added

  • minor fixes

chronosphere 0.4.0 (build 77) - 2020-10-13

CRAN release: 2020-10-20

Added

  • package collate in DESCRIPTION
  • The SpatialArray class is added to the package, mimicking RasterArrays for vector objects.
  • The SpatialList class is added, to be used in the SpatialStack.
  • The XArray class-union is made for the efficient generalization of methods shared by RasterArray and SpatialArray. Shared methods are impplemented.
  • the spTransform() function is implemented for SpatialStacks and SpatialArrays.
  • the apply() function gained the MARGIN=NULL submethod. THis submethod is useful for the iteration of functions for every XArray item.
  • The mapedge() function for the quick calculation of map edges in non-equirectangular projections.
  • the ‘coasts’ data demo object of the PaleoMAP Paleocoastlines
  • types() generic and SpatialArray-method is added.

Changed

  • Multiple RasterArray methods are now generalized for the XArray and are no longer specific to RasterArrays.
  • vignette was renamed from chronos.Rmd to chronosphere.Rmd, references to ‘clim’ were removed and uses ‘coasts’ now instead

Removed

  • the reporting tools added in build 75 are removed as they require further testing
  • the ‘clim’ demo object was removed to decrease the size of the package

Known issues/missing features

  • SpatialArrays and SpatialStacks do not have a default plotting method yet.
  • The apply() function has limit utility on SpatialArrays.
  • rare issues with res/ver defaulting, use explicit ver and res to ensure correct download

chronosphere 0.3.1 (build 76) - 2020-09-23

CRAN release: 2020-08-10

Added

  • Forced UTF-8 encoding for the registry tables
  • added API call to chronosphere object attributes.

chronosphere 0.3.1 (build 75) - 2020-09-20

CRAN release: 2020-08-10

Added

  • create_metadata() and report() to create data report based on the pbdb download
  • generate_bib() and related functions to generate bibliography for report
  • capitalize() to capitalise strings - for formatting purposes
  • pkg_file() to access files within the package
  • template files to inst/rmarkdown/

chronosphere 0.3.1 (build 74) - 2020-08-20

CRAN release: 2020-08-10

Added

  • The SpatialLinesDataFrame-method of the reconstruct() function.

chronosphere 0.3.1 (build 73) - 2020-08-07

CRAN release: 2020-08-10

Added

  • The reference() and info() functions. The new reference() function is now used within fetch().

Fixed

  • minor bugs.

chronosphere 0.3.0 (build 72) - 2020-07-30

CRAN release: 2020-06-10

Added

  • The ‘plateperiod’ argument was accidentally deleted during update to build 69, now it is live again.

chronosphere 0.3.0 (build 71) - 2020-07-14

CRAN release: 2020-06-10

Changed

  • Fixed forced download of registry table when datadir was given and data were already present on disk/storage device

chronosphere 0.3.0 (build 70) - 2020-06-11

CRAN release: 2020-06-10

Added

  • datasets() function gained the ‘dat’, ‘master’ and ‘greetings’ arguments. The default setting of the function only downloads the list of datasets (dat) and variables (var). Setting the ‘dat’ argument to a character entry will download the list of all archives from that dataset. Setting the master argument to ‘master=TRUE’ will download a list of all archives, which is expected to be very long in the near future. The argument ‘greetings=TRUE’ will display a reminder that additional versions and resolutions are available.
  • the downloaded objects now have chronosphere attributes. These record the accession information used previously, which allows the repetition of function call, if necessary - including changes.
  • fetch() can return the function call, using call=TRUE. This can be either an expression or a terminal message, depending on the settings of call.expr=TRUE/FALSE.
  • fetch() can be used with an already downloaded the chronosphere-object to either redownload it, or get its download function call.
  • fetch() can be used to return multiple variables from the same dataset. These will be concatenated into a list, unless they are RasterArrays, in which case fetch() will try to cbind() them
  • the extent() method of the RasterArray class
  • the server log log.csv is only checked once per session.

Removed

  • The dataindex() deprecated placeholder function was removed. Use datasets() instead.
  • previous updates to reconstruct()

chronosphere 0.2.2 (build 69) - 2020-03-11

CRAN release: 2020-02-17

Changed

  • reconstruct - defense against bad ages
  • rotationModels() and validCoords() added

chronosphere 0.2.2 (build 68) - 2020-03-11

CRAN release: 2020-02-17

Changed

  • reconstruct - defense against bad long/lat

chronosphere 0.2.2 (build 67) - 2020-03-06

CRAN release: 2020-02-17

Changed

  • bug fixes

chronosphere 0.2.2 (build 66) - 2020-03-05

CRAN release: 2020-02-17

Added

  • new method extract(‘RasterArray’, ‘matrix’)
  • by=NULL is added as to extract(‘RasterArray’, ‘data.frame’)

Changed

  • bug fix of newbounds() when col was given.
  • by=NULL is the new default of extract(‘RasterArray’, ‘data.frame’). The function was redesigned to accomodate n-dimensional RasterArray input.
  • bug fix of dimnames(‘RasterArray’)

chronosphere 0.2.2 (build 65) - 2020-02-20

CRAN release: 2020-02-17

Added

  • plateperiod argument of the reconstruct() function

chronosphere 0.2.2 (build 64) - 2020-02-20

CRAN release: 2020-02-17

Changed

  • mapplot overlap offset fixed

chronosphere 0.2.2 (build 63) - 2020-02-18

CRAN release: 2020-02-17

Added

  • rotate-method for the RasterArray class

chronosphere 0.2.2 (build 62) - 2020-02-17

CRAN release: 2020-02-17

Added

  • zzz.R with chronosphere package help file

Changed

  • the dataindex() function was renamed to datasets()

chronosphere 0.2.1 (build 61) - 2020-02-14

Changed

  • mapplot() coordinate reset fixed
  • IPCC palettes added

chronosphere 0.2.1 (build 60) - 2020-02-12

Changed

  • corrected documentation problems

chronosphere 0.2.1 (build 59) - 2020-01-27

Added

  • support for shapefile fetching

Changed

  • fetch() defaults to the coarsest resolution (highest res entry, new default is res=NULL)

chronosphere 0.2.1 (build 58) - 2020-01-12

Added

  • the nums(), colnums() and rownums() functions
  • the … argument to fetch to reach variable-specific loading options

Changed

  • Fixed issue with offline reconstruction method (one entry in an age with enumerate = FALSE)

chronosphere 0.2.0 (build 57) - 2019-12-11 (CRAN initial submission, take 3)

CRAN release: 2019-12-16

Changed

  • replaced all occurrences of T and F with TRUE and FALSE respectively
  • on.exit statements for mapplot() and showPal()
  • RasterArray constructor now works for stacks that do not have the same length as the dim product (with warning)
  • Fixed bug with colnames and rownames assignment
  • t() copies colnames and rownames attributes
  • Raster variable loading is now done with R code provided by the server
  • renamed NEWS file to NEWS.md

chronosphere 0.2.0 (build 56) - 2019-12-03 (CRAN initial submission, take 2)

CRAN release: 2019-12-16

Added

  • return value documentation for all functions
  • on.exit() statements where options and par are changed.

Changed

  • description field in DESCRIPTION
  • LazyData is set to false
  • usage entries for ‘dems’ and ‘clim’

chronosphere 0.2.0 (build 55) - 2019-11-29 (CRAN initial submission)

CRAN release: 2019-12-16

Added

  • support for NAs in the RasterArray constructor and defenses
  • ‘clim’ data object
  • bug fix for the apply() RasterArray method

Changed

  • [[ of RasterArrays now wrap output in a RasterArray by default.
  • reconstruct() function’s local submodule no longer returns coordinates for points that are situated on plates that did not exist on the at reconstruction date (matrix method returns NA coordinates, Sp methods omit)