Update for soilDB 2.8.11 / NASIS data model 7.4.3

Author: brownag

DESCRIPTION

@@ -3,15 +3,15 @@ Title: A System of Soil Classification for Making and Interpreting Soil Surveys
 Description: Taxonomic dictionaries, formative element lists, and functions related to the maintenance, development and application of U.S. Soil Taxonomy. 
    Data and functionality are based on official U.S. Department of Agriculture sources including the latest edition of the Keys to Soil Taxonomy. Descriptions and metadata are obtained from the National Soil Information System or Soil Survey Geographic databases. Other sources are referenced in the data documentation. 
    Provides tools for understanding and interacting with concepts in the U.S. Soil Taxonomic System. Most of the current utilities are for working with taxonomic concepts at the "higher" taxonomic levels: Order, Suborder, Great Group, and Subgroup.
-Version: 0.2.7
+Version: 0.2.8
 Authors@R: c(person(given="Andrew", family="Brown", email="andrew.g.brown@usda.gov", role = c("aut", "cre")), person(given="Dylan", family="Beaudette", role = c("aut"), email = "dylan.beaudette@usda.gov"))
 Maintainer: Andrew Brown <andrew.g.brown@usda.gov>
 Depends: R (>= 3.5)
 License: GPL (>= 3)
 Encoding: UTF-8
 LazyLoad: yes
 Repository: CRAN
-URL: https://github.com/ncss-tech/SoilTaxonomy, https://ncss-tech.github.io/SoilTaxonomy/, http://ncss-tech.github.io/SoilTaxonomy/
+URL: https://github.com/ncss-tech/SoilTaxonomy, https://ncss-tech.github.io/SoilTaxonomy/
 BugReports: https://github.com/ncss-tech/SoilTaxonomy/issues
 Imports: stats, utils, stringr, data.table
 Suggests: 

NEWS.md

@@ -1,3 +1,7 @@
+# SoilTaxonomy 0.2.8 (2025-07-10)
+ - Update data sets for soilDB 2.8.11 and NASIS data model 7.4.3
+ - `parse_family()`: Remove patch for `"diatomaceous"` mineralogy class in NASIS metadata
+
 # SoilTaxonomy 0.2.7 (2025-04-04)
  - Added `ST_criteria_13th` data set relating taxon codes to specific criteria from the Keys to Soil Taxonomy (13th Edition)
  - Added `getTaxonCriteria()`: a helper method for extracting values from `ST_criteria_13th`

R/family-classes.R

@@ -92,12 +92,6 @@ parse_family <- function(family, column_metadata = TRUE, flat = TRUE) {
   # lookup classes in KST definitions
   kst_lookup <- lapply(res$classes_split, function(x) {
       x <- tolower(x)
-
-      ###: CHOICE LIST PATCHES
-      # mapping of "diatomaceous" mineralogy class -> "diatomaceous earth" choicename for taxminalogy
-      x[x == "diatomaceous"] <- "diatomaceous earth"
-      ###
-      ###
       y <- tolower(ST_family_classes$classname)
       ldx <- grepl(' over ', x, fixed = TRUE) & !(x %in% y)
       if (sum(ldx) > 0) {

R/taxonTree.R

@@ -15,8 +15,7 @@
 #' @return A `SoilTaxonNode` (subclass of `data.tree` `Node`) object (invisibly). A text representation of the tree is printed to stdout when `verbose=TRUE`.
 #' @export
 #' @importFrom stats complete.cases
-#' @examplesIf !inherits(requireNamespace("data.tree", quietly = TRUE), 'try-error')
-#' @examples
+#' @examplesIf requireNamespace("data.tree")
 #'
 #' # hapludults and hapludalfs (to subgroup level)
 #' taxonTree(c("hapludults", "hapludalfs"))
@@ -39,7 +38,7 @@ taxonTree <- function(taxon,
   # get child taxa at most detailed `level`
   lh <- level_hierarchy(family = FALSE)
   lowest_level <- max(match(level, lh))
-  x <- unique(c(taxon, do.call('c', 
+  x <- unique(c(taxon, do.call('c',
                   getChildTaxa(taxon,  level = as.character(lh[lowest_level]))
                 )))
   y <- getTaxonAtLevel(x, level = level)

data-raw/ST-family-classes.csv

@@ -3,7 +3,7 @@ DomainID,classname,group
 126,amorphic,mineralogy class
 126,carbonatic,mineralogy class
 126,coprogenous,mineralogy class
-126,diatomaceous earth,mineralogy class
+126,diatomaceous,mineralogy class
 126,ferrihumic,mineralogy class
 126,ferrihydritic,mineralogy class
 126,ferritic,mineralogy class
@@ -129,6 +129,7 @@ DomainID,classname,group
 127,sandy-skeletal,particle-size class
 127,sandy-skeletal over loamy,particle-size class
 127,very-fine,particle-size class
+127,diatomaceous,particle-size class
 128,acid,reaction class
 128,allic,reaction class
 128,calcareous,reaction class