tests/testthat/test-checkDrugQuantity.R

In DrugExposureDiagnostics: Diagnostics for OMOP Common Data Model Drug Records

getInputDb <- function() {
  ingredient_drug_records <- tibble::tibble(
    drug_exposure_id = c("1", "2", "3", "4", "5"),
    drug_concept_id = c("1", "1", "2", "2", "3"),
    drug = c("x", "x", "xx", "xx", "xxx"),
    ingredient_concept_id = c("1", "1", "1", "1", "1"),
    ingredient = c("a", "a", "a", "a", "a"),
    person_id = c("1", "2", "3", "4", "5"),
    drug_exposure_start_date = c(
      as.Date("2010-01-01"), as.Date("2011-01-01"),
      as.Date("2012-01-01"), NA,
      as.Date("2013-01-01")
    ),
    drug_exposure_end_date = c(
      as.Date("2011-01-01"), NA,
      as.Date("2013-01-01"), as.Date("2010-01-01"),
      as.Date("2014-01-01")
    ),
    days_supply = c(NA, 365, 366, 365, 366),
    quantity = c(10, 20, 30, 40, 50)
  )

  mockDrugExposure(ingredient_drug_records = ingredient_drug_records)
}

test_that("check summary calculation overall", {
  testData <- getInputDb()

  result <- summariseQuantity(testData, "ingredient_drug_records", byConcept = TRUE, sampleSize = 100)

  expect_true(identical(result$minimum_drug_exposure_quantity, c(10, 30, 50)))
  expect_true(identical(result$maximum_drug_exposure_quantity, c(20, 40, 50)))
  expect_equal(length(result$q05_drug_exposure_quantity)[1], 3)

  DBI::dbDisconnect(attr(testData, "dbcon"), shutdown = TRUE)
})

test_that("check summary calculation by Concept", {
  testData <- getInputDb()
  result <- summariseQuantity(testData, "ingredient_drug_records", byConcept = FALSE, sampleSize = 100)

  expect_equal(nrow(result)[1], 1)

  DBI::dbDisconnect(attr(testData, "dbcon"), shutdown = TRUE)
})