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Efficient Slicing of SoilProfileCollection Objects

Source: R/dice.R
dice-SoilProfileCollection-method.Rd

Cut ("dice") soil horizons into 1-unit thick slices. This function replaces aqp::slice(), which will be deprecated in aqp 2.0.

Usage

# S4 method for class 'SoilProfileCollection'
dice(
  x,
  fm = NULL,
  SPC = TRUE,
  pctMissing = FALSE,
  fill = FALSE,
  strict = TRUE,
  byhz = TRUE,
  verbose = FALSE
)

Arguments

x

a SoilProfileCollection object

fm

optional formula describing top depths and horizon level attributes to include: integer.vector ~ var1 + var2 + var3 or integer.vector ~ . to include all horizon level attributes. Specification of integer.vector forces fill = TRUE. When NULL profiles are "diced" to depth and results will include all horizon level attributes. Note on interpretation of integer.vector (slice tops)

SPC

return the diced SoilPrfolileCollection, if FALSE a data.frame of horizon-level attributes

pctMissing

compute "percent missing data" by slice (when TRUE expect 6-8x longer run time)

fill

logical, fill with empty placeholder horizons in gaps within profiles, and/or, above/below interval specified in fm. Automatically set to TRUE when LHS of fm is specified. Backwards compatibility with slice is maintained by setting fill = TRUE with or without fm.

strict

perform horizon depth logic checking / flagging / removal

byhz

Evaluate horizon depth logic at the horizon level (TRUE) or profile level (FALSE). Invalid depth logic invokes HzDepthLogicSubset which removes offending profiles or horizon records.

verbose

Print information about object size/memory usage. Default: FALSE

Value

a SoilProfileCollection object, or data.frame when SPC = FALSE

Details

For large and potentially messy collections that may include missing horizon depth logic errors, consider using repairMissingHzDepths() before dice(). Consider using accumulateDepths() before invoking dice() on collections that may contain old-style O horizon notation (e.g. 5-0cm).

See also

repairMissingHzDepths(), accumulateDepths(), fillHzGaps()

Author

D.E. Beaudette and A.G. Brown