RFSurrogates 0.3.4

• var.select.smd(), var.select.md(), var.relations(), var.relations.mfi(): Made several improvements to developer experience:
  • create.forest now defaults to is.null(forest), so it will automatically be TRUE if no forest is provided, and FALSE otherwise.
  • x is no longer required if create.forest is FALSE.
  • (Internal) Inverted some nested guard clauses for readability.
• addLayer(): Refactor for-loop to lapply.
  • Add num.threads param to enable parallelization using parallel::mclapply(). It defaults to 1 for backward compatability.
• getTreeranger(): Refactor lapply() to parallel::mclapply().
  • Add num.threads param (passed to mc.cores in parallel::mclapply()). It defaults to 1 for backward compatability.
  • Add add_layer param to include the effect of addLayer within the same loop. Defaults to FALSE for backward compatability.
  • (Internal) getsingletree(): Add add_layer param to enable adding layers within the same loop.
• addSurrogates():
  • Clarified default value for num.threads to be parallel::detectCores() by adding it as a default to the parameter
  • Added assertion that RF is a ranger object.
  • Added assertion that RF$num.trees and length(trees) are equal. This is not considered a breaking change since these values should always be equal when the function is used correctly.
• Added S3 classes to the trees list objects.
  • getTreeranger() now returns a RangerTrees list.
  • addLayer() and getTreeranger(add_layer = TRUE) add the LayerTrees class to the list (indicating presence of the layer list item). It now requires that its trees param inherits RangerTrees.
  • addSurrogates() now adds the SurrogateTrees class. It now requires that its trees param inherits RangerTrees.