testthat::test_that("h_concat_expr returns a string for long expression", { expr <- quote( rtables::basic_table() %>% rtables::split_cols_by(var = "ARMCD") %>% tern::test_proportion_diff( vars = "rsp", method = "cmh", variables = list(strata = "strat") ) %>% rtables::build_table(df = dta) ) result <- h_concat_expr(expr) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("pipe_expr concatenate expressions into a single pipeline (%>%)", { result <- pipe_expr( list( expr1 = substitute(df), expr2 = substitute(head()) ) ) expected <- quote(df %>% head()) testthat::expect_identical(result, expected) }) testthat::test_that("add_expr adds expressions to expression list", { lyt <- list() lyt <- add_expr(lyt, substitute(rtables::basic_table())) lyt <- add_expr( lyt, substitute(rtables::split_cols_by(var = arm), env = list(armcd = "ARMCD")) ) lyt <- add_expr( lyt, substitute( tern::test_proportion_diff( vars = "rsp", method = "cmh", variables = list(strata = "strat") ) ) ) result <- lyt <- add_expr(lyt, substitute(rtables::build_table(df = dta))) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("add_expr manages expression list which can be used by pipe_expr", { lyt <- list() lyt <- add_expr(lyt, substitute(rtables::basic_table())) lyt <- add_expr( lyt, substitute(rtables::split_cols_by(var = arm), env = list(armcd = "ARMCD")) ) lyt <- add_expr( lyt, substitute( test_proportion_diff( vars = "rsp", method = "cmh", variables = list(strata = "strat") ) ) ) lyt <- add_expr(lyt, substitute(rtables::build_table(df = dta))) result <- pipe_expr(lyt) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) adrs <- tmc_ex_adrs expr1 <- substitute( expr = anl <- subset(df, PARAMCD == param), env = list(df = as.name("adrs"), param = "INVET") ) expr2 <- substitute(expr = anl$rsp_lab <- tern::d_onco_rsp_label(anl$AVALC)) expr3 <- substitute( expr = anl$is_rsp <- anl$rsp_lab %in% c("Complete Response (CR)", "Partial Response (PR)") ) testthat::test_that("bracket_expr concatenates expressions into a single expression", { result <- bracket_expr(list(expr1, expr2, expr3)) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("bracket_expr returns a single evaluable expression", { eval(bracket_expr(list(expr1, expr2, expr3))) result <- table(anl$rsp_lab, anl$is_rsp) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) # prepare_arm ---- testthat::test_that("prepare_arm with standard inputs", { result <- prepare_arm( dataname = "adrs", arm_var = "ARMCD", ref_arm = "ARM A", comp_arm = c("ARM B", "ARM C") ) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("prepare_arm combine ref arms", { result <- prepare_arm( dataname = "adrs", arm_var = "ARMCD", ref_arm = c("ARM A", "ARM B"), comp_arm = c("ARM C") ) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("prepare_arm combine ref arms and use new level", { result <- prepare_arm( dataname = "adrs", arm_var = "ARMCD", ref_arm = c("ARM A", "ARM B"), comp_arm = c("ARM C"), ref_arm_val = "Control" ) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("prepare_arm does not do anything when we don't want to compare or drop arms", { result <- prepare_arm( dataname = "adrs", arm_var = "ARMCD", ref_arm = NULL, comp_arm = c("ARM C"), drop = FALSE ) expected <- quote( adrs ) testthat::expect_equal(result, expected) result2 <- prepare_arm( dataname = "adrs", arm_var = "ARMCD", ref_arm = "BLA", compare_arm = FALSE, comp_arm = c("ARM C"), drop = FALSE ) testthat::expect_identical(result, result2) }) # prepare_arm_levels ---- testthat::test_that("prepare_arm_levels with standard inputs", { result <- prepare_arm_levels( dataname = "adae", parentname = "adsl", arm_var = "ARMCD", drop_arm_levels = TRUE ) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("prepare_arm_levels can use parentname arm levels", { result <- prepare_arm_levels( dataname = "adae", parentname = "adsl", arm_var = "ARMCD", drop_arm_levels = FALSE ) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("color_lab_values main", { vals <- c("3 HIGH", "2 NORMAL", "5 HIGH", "4", "0 LOW") result <- color_lab_values(vals) res <- testthat::expect_silent(result) testthat::expect_snapshot(res) }) testthat::test_that("color_lab_values neutral for none characters", { vals <- 1:5 testthat::expect_identical(color_lab_values(vals), vals) testthat::expect_identical(color_lab_values(letters), letters) }) testthat::test_that("clean_description", { vals <- rownames(mtcars) vals2 <- 1:10 testthat::expect_identical(clean_description(vals), vals) testthat::expect_identical(clean_description(vals2), as.character(vals2)) }) testthat::test_that("get_g_forest_obj_var_name", { paramcd <- teal.transform::data_extract_spec( dataname = "ADSL", filter = teal.transform::filter_spec( vars = c("PARAMCD", "CNSR"), sep = "-", choices = c("os1" = "OS-1", "os0" = "OS-0", "pfs1" = "PFS-1"), selected = "OS-1", multiple = FALSE ) ) input <- list("paramcd-dataset_ADSL_singleextract-filter1-vals" = c("OS-1")) result <- get_g_forest_obj_var_name(paramcd, input) expected <- "os1" testthat::expect_equal(result, expected) }) testthat::test_that("cs_to_select_spec single choices_selected is converted to select_spec", { testthat::expect_identical( cs_to_select_spec(teal.transform::choices_selected(letters, "a")), teal.transform::select_spec(letters, "a") ) }) testthat::test_that("cs_to_select_spec single choices_selected is converted to select_spec with multiple = TRUE", { testthat::expect_identical( cs_to_select_spec(teal.transform::choices_selected(letters, "a"), multiple = TRUE), teal.transform::select_spec(letters, "a", multiple = TRUE) ) }) testthat::test_that("cs_to_select_spec single choices_selected is converted to select_spec with ordered = TRUE", { testthat::expect_identical( cs_to_select_spec(teal.transform::choices_selected(letters, "a"), ordered = TRUE), teal.transform::select_spec(letters, "a", ordered = TRUE) ) }) testthat::test_that("cs_to_select_spec accepts choices_selected only", { testthat::expect_error( cs_to_select_spec(c("a", "b")) ) }) testthat::test_that("cs_to_select_spec accepts multiple as flag only", { testthat::expect_error( cs_to_select_spec(teal.transform::choices_selected(letters, "a"), multiple = 1L) ) }) testthat::test_that("cs_to_select_spec accepts ordered as flag only", { testthat::expect_error( cs_to_select_spec(teal.transform::choices_selected(letters, "a"), ordered = 1L) ) }) testthat::test_that("cs_to_filter_spec fails if doesn't have var_choices", { testthat::expect_error( cs_to_filter_spec(teal.transform::choices_selected(letters, "a")) ) }) testthat::test_that("cs_to_filter_spec creates filter_spec from choices_selected", { data <- data.frame(a = letters, b = LETTERS) testthat::expect_identical( cs_to_filter_spec( teal.transform::choices_selected(value_choices(data, "a"), "a") ), teal.transform::filter_spec( vars = "a", choices = teal.transform::choices_selected(value_choices(data, "a"), "a")$choices, selected = "a" ) ) }) testthat::test_that("cs_to_des_select creates data_extract_spec with single select and no filter", { testthat::expect_identical( cs_to_des_select( teal.transform::choices_selected(letters, "a"), dataname = "test" ), teal.transform::data_extract_spec( dataname = "test", select = teal.transform::select_spec(choices = letters, selected = "a") ) ) }) testthat::test_that("cs_to_des_select returns the input if data_extract_spec is provided", { testthat::expect_identical( cs_to_des_select( teal.transform::data_extract_spec( dataname = "test", select = teal.transform::select_spec(choices = letters, selected = "a") ), dataname = "test" ), teal.transform::data_extract_spec( dataname = "test", select = teal.transform::select_spec(choices = letters, selected = "a") ) ) }) testthat::test_that("cs_to_des_select creates data_extract_spec with multiple = TRUE", { testthat::expect_identical( cs_to_des_select(teal.transform::choices_selected(letters, "a"), dataname = "test", multiple = TRUE), teal.transform::data_extract_spec( dataname = "test", select = teal.transform::select_spec(choices = letters, selected = "a", multiple = TRUE) ) ) }) testthat::test_that("cs_to_des_select creates data_extract_spec with ordered = TRUE", { testthat::expect_identical( cs_to_des_select(teal.transform::choices_selected(letters, "a"), dataname = "test", ordered = TRUE), teal.transform::data_extract_spec( dataname = "test", select = teal.transform::select_spec(choices = letters, selected = "a", ordered = TRUE) ) ) }) testthat::test_that("as_numeric_from_comma_sep_str returns NULL if blank string or NULL entered", { testthat::expect_null(as_numeric_from_comma_sep_str(NULL)) testthat::expect_null(as_numeric_from_comma_sep_str(" ")) }) testthat::test_that("as_numeric_from_comma_sep_str returns numeric vector of numbers", { testthat::expect_equal(as_numeric_from_comma_sep_str("3,4,5.56"), c(3, 4, 5.56)) testthat::expect_equal(as_numeric_from_comma_sep_str("3,4 ,v"), c(3, 4, NA)) }) testthat::test_that("as_numeric_from_comma_sep_str respects sep argument", { testthat::expect_equal(as_numeric_from_comma_sep_str("3,4,5", sep = ";"), as.numeric(NA)) testthat::expect_equal(as_numeric_from_comma_sep_str("3 %% 4 %% 154.32", sep = "%%"), c(3, 4, 154.32)) }) testthat::test_that("default_total_label works properly", { testthat::expect_silent(set_default_total_label("Total Pts")) testthat::expect_equal(default_total_label(), "Total Pts") })