# ==================================================================== #
# TITLE:                                                               #
# AMR: An R Package for Working with Antimicrobial Resistance Data     #
#                                                                      #
# SOURCE CODE:                                                         #
# https://github.com/msberends/AMR                                     #
#                                                                      #
# PLEASE CITE THIS SOFTWARE AS:                                        #
# Berends MS, Luz CF, Friedrich AW, et al. (2022).                     #
# AMR: An R Package for Working with Antimicrobial Resistance Data.    #
# Journal of Statistical Software, 104(3), 1-31.                       #
# https://doi.org/10.18637/jss.v104.i03                                #
#                                                                      #
# Developed at the University of Groningen and the University Medical  #
# Center Groningen in the Netherlands, in collaboration with many      #
# colleagues from around the world, see our website.                   #
#                                                                      #
# This R package is free software; you can freely use and distribute   #
# it for both personal and commercial purposes under the terms of the  #
# GNU General Public License version 2.0 (GNU GPL-2), as published by  #
# the Free Software Foundation.                                        #
# We created this package for both routine data analysis and academic  #
# research and it was publicly released in the hope that it will be    #
# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY.              #
#                                                                      #
# Visit our website for the full manual and a complete tutorial about  #
# how to conduct AMR data analysis: https://amr-for-r.org              #
# ==================================================================== #

# we use {tinytest} for older R versions to allow unit testing in R >= 3.0.0.

# test only on GitHub Actions - not on CRAN as tests are lengthy
if (identical(Sys.getenv("R_RUN_TINYTEST"), "true")) {
  # env var 'R_LIBS_USER' gets overwritten during 'R CMD check' in GitHub Actions, so:
  .libPaths(c(Sys.getenv("R_LIBS_USER_GH_ACTIONS"), .libPaths()))
  
  if (!AMR:::pkg_is_available("tinytest", also_load = TRUE)) {
    stop("R_RUN_TINYTEST is 'true', but the tinytest package could not be loaded, so no unit tests were run")
  } else {
    
    # load the package
    library(AMR)
    
    # testthat equivalents; tinytest only records expectations that are called from the environment
    # of a test file, so these call the expectations found there (via `env`) instead of tinytest::
    test_that <- function(desc, code) {
      env <- parent.frame()
      tryCatch(code,
        skip_test = function(s) invisible(NULL),
        error = function(e) get("expect_true", envir = env)(FALSE, info = paste0("Error in '", desc, "': ", conditionMessage(e)))
      )
    }
    skip_if <- function(condition, message = "") {
      if (isTRUE(condition)) stop(structure(class = c("skip_test", "condition"), list(message = message, call = NULL)))
    }
    skip_on_cran <- function() invisible(NULL)
    expect_output <- function(...) get("expect_stdout", envir = parent.frame())(...)
    expect_named <- function(object, expected, ...) get("expect_identical", envir = parent.frame())(names(object), expected, ...)
    expect_setequal <- function(object, expected, ...) get("expect_true", envir = parent.frame())(setequal(object, expected), ...)
    expect_lte <- function(object, expected, ...) get("expect_true", envir = parent.frame())(isTRUE(all(object <= expected)), ...)
    
    # set language
    set_AMR_locale("English")
    
    # set some functions for older R versions
    if (getRversion() < "3.2.0") {
      anyNA <- AMR:::anyNA
      dir.exists <- AMR:::dir.exists
      file.size <- AMR:::file.size
      file.mtime <- AMR:::file.mtime
      isNamespaceLoaded <- AMR:::isNamespaceLoaded
      lengths <- AMR:::lengths
    }
    if (getRversion() < "3.3.0") {
      strrep <- AMR:::strrep
    }
    if (getRversion() < "3.5.0") {
      isFALSE <- AMR:::isFALSE
    }
    if (getRversion() < "3.6.0") {
      str2lang <- AMR:::str2lang
      # trims() was introduced in 3.3.0, but its argument `whitespace` only in 3.6.0
      trimws <- AMR:::trimws
    }
    if (getRversion() < "4.0.0") {
      deparse1 <- AMR:::deparse1
    }
    if (getRversion() < "4.4.0") {
      `%||%` <- AMR:::`%||%`
    }

    testdir <- ifelse(dir.exists("inst/testthat"), "inst/testthat", "testthat")
    # helper files are sourced by testthat, but not by tinytest; helper-functions.R only contains expect_inherits(), which tinytest has itself
    helpers <- list.files(system.file(testdir, package = "AMR"), pattern = "^helper.*[.]R$", full.names = TRUE)
    for (helper in helpers[basename(helpers) != "helper-functions.R"]) {
      source(helper)
    }

    suppressMessages(
      out <- test_package("AMR",
                          testdir = testdir,
                          verbose = FALSE,
                          color = FALSE
      )
    )
    cat("\n\nSUMMARY:\n")
    print(summary(out))
    if (!all_pass(out)) {
      cat("\n\nFAILURES:\n")
      print(out, passes = FALSE, limit = 100)
      stop("Unit tests failed, see above")
    }
  }
}