Changelog

zoolog 1.1.1

  1. Corrected bug when using RemoveRepeatedNames on a thesaurus with only one cathegory.
  2. Included option in AddToThesaurus to parse the new names and categories better structured as a named list.
  3. AddToThesaurus now internally remove resulting repeated names.

zoolog 1.1.02022-08-26

  1. Added Russell’s standard for Canis lupus.
  2. Included genus Canis in the taxonomy and in the taxon thesaurus.
  3. Included new entries in the measure and element thesauri.
  4. Documentation generated with the updated version of roxygen2 (7.2.1) avoiding notes on CRAN of previous zoolog version for devel platforms.

zoolog 1.0.12022-05-03

  1. Corrected Steppan’s standard for Bos primigenius. Some measurements had been missing.
  2. Corrected Davis’ standard. The change from measure SD to Davis.SD in previous release was an over-correction. Only tibia should have been affected by this change.

zoolog 1.0.02022-05-02

  1. Completed the zoologTaxonomy as a new functionality structuring the taxonomy hierarchy for the taxa used in the references.
  2. New functions Subtaxonomy, SubtaxonomySet, and GetTaxaIn. All of them taking into account the zoologThesaurus$taxon
  3. Added new categories in zoologThesaurus$taxon to include also genera, in addition to taxa.
  4. Integrated the zoologTaxonomy into the function LogRatios. This allows the automatic detection of data and reference sharing the same genus, although of different taxa.
  5. Extended vignettes to incorporate description and illustration of the new functionalities.
  6. Added several tests for the new functionalities: SubtaxonomySet function and LogRatios warning messages and automatic detection of cases with same genus but different taxon from reference.
  7. Corrected some entries in example dataset, dataValenzuelaLamas2008.
  8. Corrected bug on WriteThesaurusSet.
  9. Davis’ standard SD, equivalent to Von den Driesch’s DD, has been denoted as Davis.SD in order to resolve its incompatibility with Von den Driesch’s SD. This has been modified in Davis’ reference for sheep and added to the thesaurus for measures.
  10. Added reference “Steppan” for Bos primigenius. The standards are obtained from the same specimen as the reference “Degerbol”, but with new and more standandard measures.

zoolog 0.5.0

  1. Included new functionality structuring the taxonomy hierarchy for the taxa used in the references. There is now a zoologTaxonomy and a function, GetTaxaIn, facilitating its use.
  2. Corrected a few measurements in the example dataset.
  3. Added one entry in thesaurus.

zoolog 0.4.2

  1. Corrected a few measurements in the reference Equus_Johnstone.

zoolog 0.4.12021-09-02

  1. Clarify in the documentation that log ratios are defined using base 10 logarithms.
  2. All functions processing dataframes (LogRatios, RemoveNaCases, CondenseLogs, StandardizeDataSet) are now more robust to input data including additional S3 classes (previously giving errors). The additional classes are also passed to the output.

zoolog 0.4.02021-08-02

  1. Improved structure of function CondenseLogs. Now the methods are defined outside the function in a non-exported list of functions (condenseMethod). Now, CondenseLogs can also accept a user-defined function.
  2. In addition, corrected bug appearing when the method average was applied to a group with only one present measure log-ratio.
  3. Added some entries to the thesauri.
  4. Changed the priority order in CondenseLogs following users feedback. Now “BT” has priority over “Bd” as representative of Width.

zoolog 0.3.12021-05-04

  1. Correction of error when generating vignettes with locale different from UTF-8. The error raised in particular for operating systems with Latin-1 default, such as debian-clang.
  2. Correction of a few misspellings.

zoolog 0.3.02021-04-07

  1. Corrected bug in function CondenseLogs. Previous version failed if a measure included in the grouping was not present in the used reference to compute the log ratios. The new version is also more robust, not needing the original measurements, only the log ratios.
  2. More systematic documentation of references. Now each reference description is more systematically included in the comments of the corresponding reference file and the help page “referencesDatabase” automatically reads their description from each file.
  3. Added 3 new references (Haifa) for Dama, Equid, and Gazelle.
  4. Added 2 new references for Equid (Johnstone) and rabbit (Nottingham).
  5. Completed thesauri with new taxa, elements and measurements included in the new references, and also some measurements missing from previous references.

zoolog 0.2.0

  1. Improved structure of references. Now there is a database organized by taxa and a method to assemble the datasets.
  2. Also better documentation and correction of some mistakes in the references.
  3. Enlargement of the thesauri.
  4. Added the functionality mergedMeasures (optional parameter) to the function LogRatios
  5. Corrected erroneous reference_Sus_Albarella.

zoolog 0.1.0

First release.