mirror of
https://github.com/agdamsbo/REDCapCAST.git
synced 2024-11-24 14:01:55 +01:00
81 lines
2.0 KiB
R
81 lines
2.0 KiB
R
#' Launch the included Shiny-app for database casting and upload
|
|
#'
|
|
#' @description
|
|
#' Wraps shiny::runApp()
|
|
#'
|
|
#' @param ... Arguments passed to shiny::runApp()
|
|
#'
|
|
#' @return shiny app
|
|
#' @export
|
|
#'
|
|
#' @examples
|
|
#' # shiny_cast()
|
|
#'
|
|
shiny_cast <- function(...) {
|
|
appDir <- system.file("shiny-examples", "casting", package = "REDCapCAST")
|
|
if (appDir == "") {
|
|
stop("Could not find example directory. Try re-installing `REDCapCAST`.", call. = FALSE)
|
|
}
|
|
|
|
shiny::runApp(appDir = appDir, ...)
|
|
}
|
|
|
|
|
|
|
|
#' DEPRECATED Helper to import files correctly
|
|
#'
|
|
#' @param filenames file names
|
|
#'
|
|
#' @return character vector
|
|
#' @export
|
|
#'
|
|
#' @examples
|
|
#' file_extension(list.files(here::here(""))[[2]])[[1]]
|
|
#' file_extension(c("file.cd..ks", "file"))
|
|
file_extension <- function(filenames) {
|
|
sub(
|
|
pattern = "^(.*\\.|[^.]+)(?=[^.]*)", replacement = "",
|
|
filenames,
|
|
perl = TRUE
|
|
)
|
|
}
|
|
|
|
#' Flexible file import based on extension
|
|
#'
|
|
#' @param file file name
|
|
#' @param consider.na character vector of strings to consider as NAs
|
|
#'
|
|
#' @return tibble
|
|
#' @export
|
|
#'
|
|
#' @examples
|
|
#' read_input("https://raw.githubusercontent.com/agdamsbo/cognitive.index.lookup/main/data/sample.csv")
|
|
read_input <- function(file, consider.na = c("NA", '""', "")) {
|
|
ext <- tools::file_ext(file)
|
|
|
|
tryCatch(
|
|
{
|
|
if (ext == "csv") {
|
|
df <- readr::read_csv(file = file, na = consider.na)
|
|
} else if (ext %in% c("xls", "xlsx")) {
|
|
df <- openxlsx2::read_xlsx(file = file, na.strings = consider.na)
|
|
} else if (ext == "dta") {
|
|
df <- haven::read_dta(file = file)
|
|
} else if (ext == "ods") {
|
|
df <- readODS::read_ods(path = file)
|
|
} else if (ext == "rds") {
|
|
df <- readr::read_rds(file = file)
|
|
}else {
|
|
stop("Input file format has to be on of:
|
|
'.csv', '.xls', '.xlsx', '.dta', '.rds' or '.ods'")
|
|
}
|
|
},
|
|
error = function(e) {
|
|
# return a safeError if a parsing error occurs
|
|
stop(shiny::safeError(e))
|
|
}
|
|
)
|
|
|
|
df
|
|
}
|