R/insertErrorTab.R

In rmsharp/nprcmanager: Genetic Tools for Colony Management

#' insertErrorTab insert a list of errors found by \code{qcStudbook} in the
#' pedigree file
## Copyright(c) 2017-2020 R. Mark Sharp
## This file is part of nprcgenekeepr
#'
#' @return Text of the error list formatted as an HTML page
#'
#' @param errorLst list of errors and changes made by \code{qcStudbook}
#' @param pedigreeFileName name of file provided by user on Input tab
#' @importFrom htmlTable htmlTable
#' @importFrom stringi stri_c stri_trim_both
#' @importFrom stringi stri_split_regex
insertErrorTab <- function(errorLst, pedigreeFileName) {
  text <- summary(errorLst)
  if (checkChangedColsLst(errorLst$changedCols)) {
    colsChangedTxt <- "and Changes to Pedigree Column Names "

  } else {
    colsChangedTxt <- ""
  }
  lines <- stri_split_regex(text$txt, pattern = "\n")[[1]]
  newText <- stri_c("<h3>Errors Detected ", colsChangedTxt,
                    "</h3>\nFile: '", pedigreeFileName,
                    "'\n<ul style=\"list-style-type:disc\">\n")

  for (line in lines) {
    if (stri_trim_both(line) == "")
      next
    newText <- stri_c(newText, "	<li style=\"padding-bottom: 15px\">\n",
                      line, "</li>\n")
  }
  if (nrow(text$sp) > 0) {
    newText <- stri_c(newText, "	<li style=\"padding-bottom: 15px\">\n",
                      "One or both parents are below the ",
                      "minimum parental age. Check both parent and offspring ",
                      "birth dates.", "</li>\n")
    newText <- stri_c(newText, htmlTable(text$sp, rnames = FALSE))
  }
  newText <- stri_c(newText, "</ul>\n</p>\n</pre>")
  newText
}