tests/testthat/test-categorize.R

In icd: Comorbidity Calculations and Tools for ICD-9 and ICD-10 Codes

context("categorize")

test_that("categorize_simple result is empty", {
  expect_equal(
    0,
    nrow(res <- categorize_simple(one_icd10_pt[0, ],
      map = icd10_map_ahrq,
      id_name = "visit",
      code_name = "icd"
    ))
  )
  expect_identical(colnames(res), names(icd10_map_ahrq))
  expect_equal(
    0,
    nrow(rdf <- categorize_simple(one_icd10_pt[0, ],
      map = icd10_map_ahrq,
      id_name = "visit",
      code_name = "icd",
      return_df = TRUE
    ))
  )
  expect_identical(c("visit", names(icd10_map_ahrq)), colnames(rdf))
})
test_that("binary instead of logical can be returned", {
  expect_identical(
    categorize_simple(one_icd10_pt,
      map = icd10_map_ahrq,
      id_name = "visit",
      code_name = "icd",
      return_binary = TRUE
    ),
    logical_to_binary(
      categorize_simple(one_icd10_pt,
        map = icd10_map_ahrq,
        id_name = "visit",
        code_name = "icd",
        return_binary = FALSE
      )
    )
  )
  expect_identical(
    categorize_simple(one_icd10_pt,
      map = icd10_map_ahrq,
      id_name = "visit",
      code_name = "icd",
      return_binary = TRUE,
      return_df = TRUE
    ),
    logical_to_binary(
      categorize_simple(one_icd10_pt,
        map = icd10_map_ahrq,
        id_name = "visit",
        code_name = "icd",
        return_binary = FALSE,
        return_df = TRUE
      )
    )
  )
})

test_that("different ID types are preserved w data frame return", {
  pts_int <- pts_num <- pts_chr <- pts_fac <- random_icd10_pts
  empty_i <- empty_n <- empty_c <- empty_f <- random_icd10_pts[NULL, ]
  pts_int$visit_id <- as.integer(pts_int$visit_id)
  pts_num$visit_id <- as.numeric(pts_num$visit_id)
  pts_chr$visit_id <- as_char_no_warn(pts_chr$visit_id)
  pts_fac$visit_id <- factor(pts_chr$visit_id)
  empty_n$visit_id <- numeric()
  empty_c$visit_id <- character()
  empty_f$visit_id <- factor()
  for (cat_fun in c("categorize_simple")) {
    ress <- lapply(
      stats::setNames(
        list(
          pts_int, pts_num, pts_chr, pts_fac,
          empty_i, empty_n, empty_c, empty_f
        ),
        c("i", "n", "c", "f", "ei", "en", "ec", "ef")
      ),
      function(x) {
        eval(call(cat_fun, x,
          map = icd10_map_elix,
          id_name = "visit_id",
          code_name = "icd10",
          return_df = TRUE,
          preserve_id_type = TRUE
        ))
      }
    )
    expect_equal(class(ress[["i"]][[1]]), "integer")
    expect_equal(class(ress[["n"]][[1]]), "numeric")
    expect_equal(class(ress[["c"]][[1]]), "character")
    expect_equal(class(ress[["f"]][[1]]), "factor")
    expect_equal(class(ress[["ei"]][[1]]), "integer",
      info = paste("fun = ", cat_fun)
    )
    expect_equal(class(ress[["en"]][[1]]), "numeric")
    expect_equal(class(ress[["ec"]][[1]]), "character")
    expect_equal(class(ress[["ef"]][[1]]), "factor")
    ress_noid <- lapply(ress, `[`, -1L)
    expect_identical(ress_noid[["i"]], ress_noid[["n"]])
    expect_identical(ress_noid[["i"]], ress_noid[["c"]])
    expect_identical(ress_noid[["i"]], ress_noid[["f"]])
    expect_identical(ress_noid[["ei"]], ress_noid[["en"]])
    expect_identical(ress_noid[["ei"]], ress_noid[["ec"]])
    expect_identical(ress_noid[["ei"]], ress_noid[["ef"]])
  }
})