R/summary.R

In intermine/intermineR: R Interface with InterMine-Powered Databases

#' @name summary
#' @rdname summary
#' @docType methods
#' @aliases summary summary,ANY-method summary,InterMineR-method
#' @import S4Vectors
#' @import methods
#' @export

# methods for InterMineR class
# summary

if (is.null(getGeneric("summary"))) setGeneric("summary", function(object,...){
  standardGeneric("summary")
  })

#' @exportMethod summary

# set summary method for class InterMineR
setMethod(
  "summary",
  signature(object = "InterMineR"),
  function(object,...){
    
    # create query.log data.frame
    l = list(NULL)
    count = 0
    
    for(j in seq(length(slot(object,"where")))){
      
      x = slot(object,"where")[[j]]
      
      if("value" %in% names(x)){
        if(length(x[["value"]]) > 1){
          x[["value"]] = paste(x[["value"]], collapse = ",")
        }
        count = count + 1
        l[[count]] = data.frame(
          x[which(names(x) %in% c("path","op", "value", "code"))]
          )
      }
    }
    return(do.call(rbind,l))
  }
)