R/reduce.R

In aqp: Algorithms for Quantitative Pedology

#' Select a subset of columns from a SoilProfileCollection
#'
#' Reduce the number of columns in a `SoilProfileCollection` to a minimal set plus additional selected columns. Optional metadata columns are included if set. At a minimum the profile ID, horizon top and bottom depths, and horizon ID are included. Horizon designation and horizon texture class column names are included if metadata attributes are set. See details.
#' 
#' @param p a `SoilProfileCollection`
#' @param column_names a set of additional columns to include in the result
#' @details 
#' 
#' Minimum column names included (when `column_names = NULL`)
#'  - `idname(p)`, `horizonDepths(p)`, `hzidname(p)`
#'  
#' Optional column names included (when metadata are set)
#'  - `hzdesgnname(p)`, `hztexclname(p)`, `GHL(p)`
#'  
#' @seealso `hzdesgnname()` `hztexclname()` `GHL()`
#' @return a `SoilProfileCollection`
#' @export
reduceSPC <- function(p, column_names = NULL) {
  
  nn <- .hzMetadataNames(p, depths = TRUE)
  ecn <- column_names[!column_names %in% nn]
  sn <- siteNames(p)
  hn <- horizonNames(p)
  
  stn <- sn[sn %in% ecn]
  hzn <- c(nn, hn[hn %in% ecn])
  msn <- ecn[!(ecn %in% stn | ecn %in% hzn)]
  
  if (length(msn) > 0) {
    stop(sprintf("column names (%s) not found in SoilProfileCollection",
                 paste0(msn, collapse = ", ")), call. = FALSE)
  }
  
  replaceHorizons(p) <- .data.frame.j(horizons(p), hzn)
  p@site <- .data.frame.j(site(p), c(idname(p), stn))
  p
}