# Setup for testing ------------------------------------------------------- futile.logger::flog.threshold("FATAL") # Create reports reports data for estimate_infection() est_inf <- EpiNow2::example_confirmed[1:10] # Create reports reports data for estimate_secondary() est_sec <- data.table::copy(est_inf)[ , `:=`( primary = confirm, secondary = round(0.5 * confirm), confirm = NULL ) ] # Custom test functions --------------------------------------------------- test_col_specs <- function(dt_list, model = "estimate_infections") { expect_error( check_reports_valid(dt_list$bad_col_name, for_estimate_secondary = for_estimate_secondary ) ) expect_error( check_reports_valid(dt_list$bad_col_type, for_estimate_secondary = for_estimate_secondary ) ) expect_error( check_reports_valid(dt_list$bad_col_entry, for_estimate_secondary = for_estimate_secondary ) ) } test_that("check_reports_valid errors for bad 'confirm' specifications", { # Bad "confirm" column spec scenarios confirm_col_dt <- list( # Bad column name bad_col_name = data.table::copy(est_inf)[ , `:=`( confirm_bad_name = confirm, confirm = NULL ) ], # Bad column type bad_col_type = data.table::copy(est_inf)[ , lapply(.SD, as.character), by = confirm ], # Bad column entry bad_col_entry = data.table::copy(est_inf)[ , confirm := -confirm ] ) # Run tests test_col_specs(confirm_col_dt, model = "estimate_infections") }) test_that("check_reports_valid errors for bad 'date' specifications", { # Bad "date" column spec scenarios date_col_dt <- list( # Bad column name bad_col_name = data.table::copy(est_inf)[ , `:=`( date_bad_name = date, date = NULL ) ], # Bad column type bad_col_type = data.table::copy(est_inf)[ , lapply(.SD, as.character), by = date ], # Bad column entry bad_col_entry = data.table::copy(est_inf)[ c(1, 3), date := NA ] ) # Run tests test_col_specs(date_col_dt, model = "estimate_infections") }) test_that("check_reports_valid errors for bad 'primary' specifications", { # Bad "primary" column spec scenarios primary_col_dt <- list( # Bad column name bad_col_name = data.table::copy(est_sec)[ , `:=`( primary_bad_name = primary, primary = NULL ) ], # Bad column type bad_col_type = data.table::copy(est_sec)[ , lapply(.SD, as.character), by = primary ], # Bad column entry bad_col_entry = data.table::copy(est_sec)[ , primary := -primary ] ) # Run tests test_col_specs(primary_col_dt, model = "estimate_secondary") }) test_that("check_reports_valid errors for bad 'secondary' specifications", { # Bad "secondary" column spec scenarios secondary_col_dt <- list( # Bad column name bad_col_name = data.table::copy(est_sec)[ , `:=`( secondary_bad_name = primary, secondary = NULL ) ], # Bad column type bad_col_type = data.table::copy(est_sec)[ , lapply(.SD, as.character), by = secondary ], # Bad column entry bad_col_entry = data.table::copy(est_sec)[ , secondary := -secondary ] ) # Run tests test_col_specs(secondary_col_dt, model = "estimate_secondary") })