tests/testthat/test-trauma_01.R

In nemsqar: National Emergency Medical Service Quality Alliance Measure Calculations

testthat::test_that("trauma_01 produces expected results", {

  # Synthetic test data
  test_data <- tibble::tibble(
    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    epatient_15 = c(34, 5, 45, 2, 60),  # Ages
    epatient_16 = c("Years", "Years", "Years", "Months", "Years"),
    eresponse_05 = rep(2205001, 5),
    esituation_02 = rep("Yes", 5),
    evitals_23 = rep(15, 5),
    evitals_26 = rep("Alert", 5),
    evitals_27 = c(0, 2, 4, 6, 8),
    edisposition_28 = rep(4228001, 5),
    edisposition_30 = c(4230001, 4230003, 4230001, 4230007, 4230007)
  )

  # Run function
  result <- suppressWarnings(trauma_01(
    df = test_data,
    erecord_01_col = erecord_01,
    epatient_15_col = epatient_15,
    epatient_16_col = epatient_16,
    eresponse_05_col = eresponse_05,
    esituation_02_col = esituation_02,
    evitals_23_col = evitals_23,
    evitals_26_col = evitals_26,
    evitals_27_col = evitals_27,
    edisposition_28_col = edisposition_28,
    transport_disposition_col = edisposition_30,
    confidence_interval = TRUE
  ))

  # Check structure
  testthat::expect_s3_class(result, "data.frame")
  testthat::expect_true(all(c("measure", "pop", "numerator", "denominator", "prop", "prop_label", "lower_ci", "upper_ci") %in% names(result)))

  # should throw a warning due to small counts
  testthat::expect_warning(trauma_01(
    df = test_data,
    erecord_01_col = erecord_01,
    epatient_15_col = epatient_15,
    epatient_16_col = epatient_16,
    eresponse_05_col = eresponse_05,
    esituation_02_col = esituation_02,
    evitals_23_col = evitals_23,
    evitals_26_col = evitals_26,
    evitals_27_col = evitals_27,
    edisposition_28_col = edisposition_28,
    transport_disposition_col = edisposition_30,
    confidence_interval = TRUE
  ))

  # Run function
  result <- trauma_01(
    df = test_data,
    erecord_01_col = erecord_01,
    epatient_15_col = epatient_15,
    epatient_16_col = epatient_16,
    eresponse_05_col = eresponse_05,
    esituation_02_col = esituation_02,
    evitals_23_col = evitals_23,
    evitals_26_col = evitals_26,
    evitals_27_col = evitals_27,
    edisposition_28_col = edisposition_28,
    transport_disposition_col = edisposition_30
  )

  # Check structure
  testthat::expect_s3_class(result, "data.frame")
  testthat::expect_true(all(c("measure", "pop", "numerator", "denominator", "prop", "prop_label") %in% names(result)))

  # Check calculations
  testthat::expect_equal(sum(result$numerator), 9)
  testthat::expect_equal(sum(result$denominator), 9)
  testthat::expect_equal(result$prop[result$pop == "Adults"], 1)
  testthat::expect_equal(nrow(result), 3)

  # create tables to test correct functioning
  patient_table <- tibble::tibble(

    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    incident_date = as.Date(c("2025-01-01", "2025-01-05", "2025-02-01", "2025-01-01", "2025-06-01")),
    patient_dob = as.Date(c("2000-01-01", "2020-01-01", "2023-02-01", "2023-01-01", "1970-06-01")),
    epatient_15 = c(25, 5, 2, 2, 55),  # Ages
    epatient_16 = c("Years", "Years", "Years", "Years", "Years")

  )

  response_table <- tibble::tibble(

    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    eresponse_05 = rep(2205001, 5)

  )

  situation_table <- tibble::tibble(

    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    esituation_02 = rep("Yes", 5),
  )


  vitals_table <- tibble::tibble(

    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    evitals_23 = rep(15, 5),
    evitals_26 = rep("Alert", 5),
    evitals_27 = c(0, 2, 4, 6, 8)
  )

  disposition_table <- tibble::tibble(
    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    edisposition_28 = rep(4228001, 5),
    edisposition_30 = c(4230001, 4230003, 4230001, 4230007, 4230007)
  )


  # test the success of the function

  result_2 <- trauma_01(patient_scene_table = patient_table,
                     response_table = response_table,
                     situation_table = situation_table,
                     vitals_table = vitals_table,
                     disposition_table = disposition_table,
                     erecord_01_col = erecord_01,
                     epatient_15_col = epatient_15,
                     epatient_16_col = epatient_16,
                     eresponse_05_col = eresponse_05,
                     esituation_02_col = esituation_02,
                     evitals_23_col = evitals_23,
                     evitals_26_col = evitals_26,
                     evitals_27_col = evitals_27,
                     edisposition_28_col = edisposition_28,
                     transport_disposition_col = edisposition_30
                     )

  # Check calculations
  testthat::expect_equal(sum(result_2$numerator), 10)
  testthat::expect_equal(sum(result_2$denominator), 10)
  testthat::expect_equal(result_2$prop[result_2$pop == "Adults"], 1)
  testthat::expect_equal(nrow(result_2), 3)


})

testthat::test_that("trauma_01 handles missing data correctly", {

  # Synthetic test data
  missing_data <- tibble::tibble(
    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    epatient_15 = c(34, 5, 45, 2, 60),  # Ages
    epatient_16 = c("Years", "Years", NA, "Months", "Years"),
    eresponse_05 = rep(2205001, 5),
    esituation_02 = rep("Yes", 5),
    evitals_23 = rep(15, 5),
    evitals_26 = rep("Alert", 5),
    evitals_27 = c(0, 2, 4, 6, 8),
    edisposition_28 = rep(4228001, 5),
    edisposition_30 = c(NA, 4230003, 4230001, NA, 4230007)
  )

  result <- trauma_01(
    df = missing_data,
    erecord_01_col = erecord_01,
    epatient_15_col = epatient_15,
    epatient_16_col = epatient_16,
    eresponse_05_col = eresponse_05,
    esituation_02_col = esituation_02,
    evitals_23_col = evitals_23,
    evitals_26_col = evitals_26,
    evitals_27_col = evitals_27,
    edisposition_28_col = edisposition_28,
    transport_disposition_col = edisposition_30
  )

  testthat::expect_true(nrow(result) > 0)
  testthat::expect_true(all(!is.na(result$denominator)))

})

testthat::test_that("trauma_01 returns empty result for non-matching criteria", {

  # Synthetic test data
  non_matching_data <- tibble::tibble(
    erecord_01 = c("R1", "R2", "R3", "R4", "R5"),
    epatient_15 = c(34, 5, 45, 2, 60),  # Ages
    epatient_16 = c("Years", "Years", "Years", "Months", "Years"),
    eresponse_05 = rep(2205001, 5),
    esituation_02 = rep("Yes", 5),
    evitals_23 = rep(15, 5),
    evitals_26 = rep("Alert", 5),
    evitals_27 = c(0, 2, 4, 6, 8),
    edisposition_28 = rep(4228001, 5),
    edisposition_30 = rep("not a transport", 5)
  )

  result <- trauma_01(
    df = non_matching_data,
    erecord_01_col = erecord_01,
    epatient_15_col = epatient_15,
    epatient_16_col = epatient_16,
    eresponse_05_col = eresponse_05,
    esituation_02_col = esituation_02,
    evitals_23_col = evitals_23,
    evitals_26_col = evitals_26,
    evitals_27_col = evitals_27,
    edisposition_28_col = edisposition_28,
    transport_disposition_col = edisposition_30
  )

  testthat::expect_equal(sum(result$denominator), 0)
})