test_that("create patterns, correct output", { skip_on_cran() drug_strength <- dplyr::tibble( drug_concept_id = c(1, 1, 2), ingredient_concept_id = c(13, 14, 15), amount_value = c(3, NA, NA), amount_unit_concept_id = c(8718, NA, NA), numerator_value = c(NA, 20, 10), numerator_unit_concept_id = c(NA, 7, 8576), denominator_value = c(NA, 100, 100), denominator_unit_concept_id = c(NA, 10, 45744809), valid_start_date = as.Date("1900-01-01"), valid_end_date = as.Date("2100-01-01") ) concept <- dplyr::tibble( concept_name = c( "Drug1", "Drug2", "Ing1", "Ing2", "Ing3", "AmountUnit", "NumUnit1", "NumUnit2", "DenUnit", "DenUnit2", "international unit", "milligram", "Actuation" ), concept_class_id = c( rep("Branded drug", 2), rep("Ingredient", 3), rep("Unit", 8) ), domain_id = c(rep("Drug", 5), rep("Unit", 8)), concept_id = c(1, 2, 13, 14, 15, 4, 7, 8, 10, 11, 8718, 8576, 45744809), vocabulary_id = 0, concept_code = 0, valid_start_date = as.Date("1900-01-01"), valid_end_date = as.Date("2100-01-01") ) concept_relationship <- dplyr::tibble( concept_id_1 = c(1, 2), concept_id_2 = c(19016586, 46275062), relationship_id = c(rep("RxNorm has dose form", 2)), valid_start_date = as.Date("1900-01-01"), valid_end_date = as.Date("2100-01-01") ) cdm <- mockDrugUtilisation( con = connection(), writeSchema = schema(), drug_strength = drug_strength, concept = concept, concept_relationship = concept_relationship ) expect_no_error(patternTab <- patternTable(cdm)) expect_true(all(colnames(patternTab) == c( "pattern_id", "formula_name", "validity", "number_concepts", "number_ingredients", "number_records", "amount_numeric", "amount_unit_concept_id", "numerator_numeric", "numerator_unit_concept_id", "denominator_numeric", "denominator_unit_concept_id" ))) expect_true(nrow(patternTab) == 3) expect_true(all(patternTab |> dplyr::select(number_concepts) |> dplyr::pull() == c(1, 1, 1))) patternTab |> dplyr::filter(.data$validity == "pattern with formula") |> nrow() |> expect_equal(2) patternTab |> dplyr::filter(.data$validity != "pattern with formula") |> nrow() |> expect_equal(1) mockDisconnect(cdm = cdm) })