Fixes validation and case when worst flag does not exist by averissimo · Pull Request #1543 · insightsengineering/teal.modules.clinical

averissimo · 2026-06-09T16:07:08Z

Pull Request

Changes description

Uses teal's validation input framework
Fixes problem with module stalling when selected worst flag does not exist
- It can be tested using the following app and selecting "N"

Example app (inherited from other PR)

devtools::load_all()
data <- teal_data()
 data <- within(data, {
   ADSL <- teal.modules.clinical::tmc_ex_adsl
   ADLB <- teal.modules.clinical::tmc_ex_adlb %>%
     dplyr::filter(!AVISIT %in% c("SCREENING", "BASELINE"))
 })
 join_keys(data) <- default_cdisc_join_keys[names(data)]

 ADSL <- data[["ADSL"]]
 ADLB <- data[["ADLB"]]

 app <- init(
   data = data,
   modules = modules(
     tm_t_abnormality_by_worst_grade(
       label = "Laboratory Test Results with Highest Grade Post-Baseline",
       dataname = "ADLB",
       arm_var = choices_selected(
         choices = variable_choices(ADSL, subset = c("ARM", "ARMCD")),
         selected = "ARM"
       ),
       paramcd = choices_selected(
         choices = value_choices(ADLB, "PARAMCD", "PARAM"),
         selected = c("ALT", "CRP", "IGA")
       ),
       worst_flag_indicator = teal.transform::choices_selected(c("Y", "N")),
       add_total = FALSE
     )
   ),
   filter = teal_slices(
     teal_slice("ADSL", "SAFFL", selected = "Y"),
     teal_slice("ADLB", "ONTRTFL", selected = "Y")
   )
 )
 if (interactive()) {
   shinyApp(app$ui, app$server)
 }

github-actions · 2026-06-09T16:17:42Z

Unit Tests Summary

1 files ± 0 74 suites ±0 2h 6m 40s ⏱️ + 2h 2m 10s
795 tests + 40 788 ✅ + 566 7 💤 - 526 0 ❌ ±0
2 598 runs +1 628 2 591 ✅ +2 154 7 💤 - 526 0 ❌ ±0

Results for commit 6115881. ± Comparison against base commit 9bd2e66.

♻️ This comment has been updated with latest results.

github-actions · 2026-06-09T16:17:47Z

Unit Test Performance Difference

Test suite performance difference

Test Suite	$Status$	Time on `main`	$±Time$	$±Tests$	$±Skipped$	$±Failures$	$±Errors$
shinytest2-teal_picks_playground	👶		$+0.61$	$+3$	$+3$	$0$	$0$
shinytest2-tm_a_gee	💔	$0.25$	$+2.96$	$+34$	$0$	$0$	$0$
shinytest2-tm_a_mmrm	💔	$0.69$	$+8.98$	$+48$	$0$	$0$	$0$
shinytest2-tm_g_barchart_simple	💔	$0.34$	$+4.21$	$+92$	$0$	$0$	$0$
shinytest2-tm_g_ci	💔	$0.21$	$+1.29$	$+1$	$+1$	$0$	$0$
shinytest2-tm_g_forest_rsp	💔	$0.26$	$+3.48$	$+20$	$+1$	$0$	$0$
shinytest2-tm_g_forest_tte	💔	$0.10$	$+2.20$	$+7$	$+7$	$0$	$0$
shinytest2-tm_g_ipp	💔	$0.21$	$+3.10$	$+56$	$0$	$0$	$0$
shinytest2-tm_g_km	💔	$0.41$	$+2.77$	$0$	$0$	$0$	$0$
shinytest2-tm_g_lineplot	💔	$0.16$	$+1.54$	$+10$	$0$	$0$	$0$
shinytest2-tm_g_pp_adverse_events	💔	$0.25$	$+1.66$	$0$	$0$	$0$	$0$
shinytest2-tm_g_pp_patient_timeline	💔	$0.38$	$+8.65$	$+260$	$0$	$0$	$0$
shinytest2-tm_g_pp_therapy	💚	$328.41$	$-320.89$	$-36$	$+23$	$0$	$0$
shinytest2-tm_t_abnormality	💔	$0.13$	$+1.32$	$+9$	$0$	$0$	$0$
shinytest2-tm_t_abnormality_by_worst_grade	💔	$0.11$	$+1.04$	$0$	$0$	$0$	$0$
shinytest2-tm_t_ancova	💔	$0.18$	$+1.06$	$0$	$0$	$0$	$0$
shinytest2-tm_t_binary_outcome	💔	$0.15$	$+1.28$	$0$	$0$	$0$	$0$
shinytest2-tm_t_events_by_grade	💔	$0.14$	$+1.51$	$0$	$0$	$0$	$0$
shinytest2-tm_t_events_summary	💔	$0.11$	$+2.67$	$0$	$0$	$0$	$0$
shinytest2-tm_t_exposure	💔	$0.14$	$+1.91$	$0$	$0$	$0$	$0$
shinytest2-tm_t_pp_laboratory	👶		$+1.56$	$+16$	$+16$	$0$	$0$
shinytest2-tm_t_pp_prior_medication	💔	$0.16$	$+1.44$	$0$	$0$	$0$	$0$
shinytest2-tm_t_smq	💔	$0.11$	$+1.39$	$0$	$0$	$0$	$0$
tm_t_pp_laboratory	👶		$+16.43$	$+10$	$0$	$0$	$0$
utils_picks	👶		$+0.36$	$+57$	$0$	$0$	$0$

Additional test case details

Test Suite	$Status$	Time on `main`	$±Time$	Test Case
examples	👶		$+0.06$	example_arm_bucket_values.Rd
examples	👶		$+0.03$	example_arm_ref_comp_buckets_validator.Rd
examples	👶		$+0.01$	example_arm_ref_comp_observer_picks.Rd
examples	👶		$+0.01$	example_paramcd_title_from_anl.Rd
shinytest2-teal_picks_playground	👶		$+0.19$	e2e_teal_picks_playground_app_starts_without_Shiny_errors.
shinytest2-teal_picks_playground	👶		$+0.31$	e2e_teal_picks_playground_get_teal_picks_slot_reads_datasets_variables.
shinytest2-teal_picks_playground	👶		$+0.10$	e2e_teal_picks_playground_set_teal_picks_slot_updates_arm_var_variables.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Click_on_fit_model_shows_table_for_default_selection
shinytest2-tm_a_mmrm	💀	$0.02$	$-0.02$	e2e_tm_a_mmrm_Click_on_fit_model_shows_table_for_default_selection.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_arm_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_arm_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_arm_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_arm_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_arm_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_arm_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_aval_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_aval_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_aval_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_aval_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_aval_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_aval_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_id_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_id_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_id_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_id_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_id_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_id_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.02$	$-0.02$	e2e_tm_a_mmrm_Deselection_of_arm_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_arm_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.02$	$-0.02$	e2e_tm_a_mmrm_Deselection_of_arm_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_arm_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_arm_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_arm_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_aval_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_aval_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_aval_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	💀	$0.02$	$-0.02$	e2e_tm_a_mmrm_Deselection_of_aval_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_aval_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_aval_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_id_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_id_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_id_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_id_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_id_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_id_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_visit_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_visit_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_visit_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_visit_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_visit_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Deselection_of_visit_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.21$	e2e_tm_a_mmrm_Deselection_visit_var_throws_validation_error_in_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_visit_var_throws_validation_error_in_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_visit_var_throws_validation_error_in_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_visit_var_throws_validation_error_in_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_visit_var_throws_validation_error_in_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Deselection_visit_var_throws_validation_error_in_method_t_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.19$	e2e_tm_a_mmrm_Function_g_mmrm_diagnostic_selection_shows_output_settings_changing_settings_throws_no_validation_errors_and_verify_visibility_of_generated_plots
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Function_g_mmrm_diagnostic_selection_shows_output_settings_changing_settings_throws_no_validation_errors_and_verify_visibility_of_generated_plots.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Function_g_mmrm_lsmeans_selection_shows_output_settings_changing_settings_throws_no_validation_errors_and_verify_visibility_of_generated_plots
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Function_g_mmrm_lsmeans_selection_shows_output_settings_changing_settings_throws_no_validation_errors_and_verify_visibility_of_generated_plots.
shinytest2-tm_a_mmrm	👶		$+0.19$	e2e_tm_a_mmrm_Function_t_mmrm_lsmeans_selection_shows_output_settings_changing_settings_throws_no_validation_errors_and_verify_visibility_of_generated_tables
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Function_t_mmrm_lsmeans_selection_shows_output_settings_changing_settings_throws_no_validation_errors_and_verify_visibility_of_generated_tables.
shinytest2-tm_a_mmrm	👶		$+0.22$	e2e_tm_a_mmrm_Module_initializes_in_teal_without_errors_and_displays_a_message_to_click_Fit_Model_
shinytest2-tm_a_mmrm	💀	$0.02$	$-0.02$	e2e_tm_a_mmrm_Module_initializes_in_teal_without_errors_and_displays_a_message_to_click_Fit_Model_.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_g_mmrm_diagnostic
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_g_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_g_mmrm_lsmeans
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_g_mmrm_lsmeans.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_cov
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_cov.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_diagnostic
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_diagnostic.
shinytest2-tm_a_mmrm	👶		$+0.20$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_fixed
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_fixed.
shinytest2-tm_a_mmrm	👶		$+0.21$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_lsmeans
shinytest2-tm_a_mmrm	💀	$0.01$	$-0.01$	e2e_tm_a_mmrm_Validate_output_on_different_selection_on_method_t_mmrm_lsmeans.
shinytest2-tm_g_barchart_simple	👶		$+0.21$	e2e_tm_g_barchart_simple_Starts_with_specified_label_and_default_encoding_selections.
shinytest2-tm_g_barchart_simple	💀	$0.01$	$-0.01$	e2e_tm_g_barchart_simple_Starts_with_specified_label_id_var_arm_var_visit_var_paramcd_cov_var_conf_level_and_conf_struct.
shinytest2-tm_g_ci	👶		$+0.09$	e2e_tm_g_ci_Changing_confidence_level_updates_plot.
shinytest2-tm_g_ci	👶		$+0.09$	e2e_tm_g_ci_Changing_statistic_updates_plot.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Deselecting_AVISIT_filter_shows_validation_error.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Deselecting_AVISIT_filter_value_throws_validation_error.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Deselecting_PARAMCD_filter_shows_validation_error.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Deselecting_PARAMCD_filter_value_throws_validation_error.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Deselecting_color_column_changes_plot_output_and_doesn_t_throw_validation_error.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Deselecting_color_column_shows_validation_error.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Deselecting_x_var_column_shows_validation_error.
shinytest2-tm_g_ci	💀	$0.02$	$-0.02$	e2e_tm_g_ci_Deselecting_x_var_column_throws_validation_error.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Deselecting_y_var_column_shows_validation_error.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Deselecting_y_var_column_throws_validation_error.
shinytest2-tm_g_ci	👶		$+0.12$	e2e_tm_g_ci_Module_initializes_and_produces_plot_output.
shinytest2-tm_g_ci	💀	$0.02$	$-0.02$	e2e_tm_g_ci_Module_initializes_in_teal_without_errors_and_produces_plot_output.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Module_initializes_with_specified_label_x_var_y_var_ADLB_filters_color_conf_level_and_stat.
shinytest2-tm_g_ci	👶		$+0.11$	e2e_tm_g_ci_Module_matches_label_picks_exports_conf_level_and_stat.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Selecting_AVISIT_filter_value_doesn_t_throw_validation_errors.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Selecting_AVISIT_filter_value_updates_plot.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Selecting_PARAMCD_filter_value_changes_plot_and_doesn_t_throw_validation_errors.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Selecting_PARAMCD_filter_value_updates_plot.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Selecting_color_column_changes_plot_output_and_doesn_t_throw_validation_errors.
shinytest2-tm_g_ci	👶		$+0.11$	e2e_tm_g_ci_Selecting_color_column_updates_plot.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Selecting_confidence_interval_value_changes_plot_and_doesn_t_throw_any_errors.
shinytest2-tm_g_ci	💀	$0.02$	$-0.02$	e2e_tm_g_ci_Selecting_statistic_to_use_changes_a_plot_and_doesn_t_throw_any_errors.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Selecting_x_var_column_changes_plot_and_doesn_t_throw_validation_errors.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Selecting_x_var_column_updates_plot.
shinytest2-tm_g_ci	💀	$0.01$	$-0.01$	e2e_tm_g_ci_Selecting_y_var_column_changes_plot_and_doesn_t_throw_validation_errors.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Selecting_y_var_column_updates_plot.
shinytest2-tm_g_ci	👶		$+0.10$	e2e_tm_g_ci_Uses_PARAMCD_and_AVISIT_module_arguments_in_picks_mode.
shinytest2-tm_g_forest_rsp	💀	$0.01$	$-0.01$	e2e_tm_g_forest_rsp_Deselecting_conf_level_or_selecting_outside_the_range_of_0_1_throws_validation_error.
shinytest2-tm_g_forest_rsp	👶		$+0.20$	e2e_tm_g_forest_rsp_Deselecting_conf_level_throws_validation_error.
shinytest2-tm_g_forest_rsp	👶		$+0.19$	e2e_tm_g_forest_rsp_Selecting_conf_level_outside_range_0_1_throws_validation_error.
shinytest2-tm_g_forest_tte	👶		$+0.16$	e2e_tm_g_forest_tte_Deselecting_strata_var_changes_plot_and_does_not_throw_validation_errors.
shinytest2-tm_g_forest_tte	👶		$+0.16$	e2e_tm_g_forest_tte_Deselecting_subgroup_var_changes_plot_and_does_not_throw_validation_errors.
shinytest2-tm_g_forest_tte	👶		$+0.17$	e2e_tm_g_forest_tte_Deselection_of_arm_var_throws_validation_error.
shinytest2-tm_g_forest_tte	👶		$+0.17$	e2e_tm_g_forest_tte_Deselection_of_conf_level_throws_validation_error.
shinytest2-tm_g_forest_tte	💀	$0.02$	$-0.02$	e2e_tm_g_forest_tte_Deselection_of_paramcd_var_throws_validation_error.
shinytest2-tm_g_forest_tte	👶		$+0.16$	e2e_tm_g_forest_tte_Selecting_a_non_factor_column_in_subgroup_var_throws_validation_error.
shinytest2-tm_g_forest_tte	👶		$+0.16$	e2e_tm_g_forest_tte_Selecting_conf_level_outside_range_0_1_throws_validation_error.
shinytest2-tm_g_forest_tte	👶		$+0.19$	e2e_tm_g_forest_tte_Selection_of_strata_var_changes_the_element_and_does_not_throw_validation_errors.
shinytest2-tm_g_forest_tte	👶		$+0.17$	e2e_tm_g_forest_tte_Selection_of_subgroup_var_changes_the_element_and_does_not_throw_validation_errors.
shinytest2-tm_g_km	💀	$0.01$	$-0.01$	e2e_tm_g_km_Changing_facet_var_changes_the_plot_without_errors.
shinytest2-tm_g_km	👶		$+0.11$	e2e_tm_g_km_Changing_facet_var_updates_the_encoding_without_errors.
shinytest2-tm_g_lineplot	💀	$0.01$	$-0.01$	e2e_tm_g_lineplot_Deselecting_param_throws_validation_error.
shinytest2-tm_g_lineplot	👶		$+0.15$	e2e_tm_g_lineplot_Deselecting_paramcd_throws_validation_error.
shinytest2-tm_g_lineplot	💀	$0.01$	$-0.01$	e2e_tm_g_lineplot_Starts_with_specified_label_param_group_var_y_x_mid_interval_incl_screen_plot_settings_and_table_settings.
shinytest2-tm_g_lineplot	👶		$+0.16$	e2e_tm_g_lineplot_Starts_with_specified_label_paramcd_group_var_y_x_mid_interval_incl_screen_plot_settings_and_table_settings.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.35$	e2e_tm_g_pp_patient_timeline_Deselecting_aerelday_end_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.02$	$-0.02$	e2e_tm_g_pp_patient_timeline_Deselecting_aerelday_end_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.35$	e2e_tm_g_pp_patient_timeline_Deselecting_aerelday_start_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Deselecting_aerelday_start_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.35$	e2e_tm_g_pp_patient_timeline_Deselecting_aetime_end_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Deselecting_aetime_end_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.37$	e2e_tm_g_pp_patient_timeline_Deselecting_aetime_start_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Deselecting_aetime_start_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.35$	e2e_tm_g_pp_patient_timeline_Deselecting_dsrelday_end_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Deselecting_dsrelday_end_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.35$	e2e_tm_g_pp_patient_timeline_Deselecting_dsrelday_start_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Deselecting_dsrelday_start_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.35$	e2e_tm_g_pp_patient_timeline_Deselecting_dstime_end_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Deselecting_dstime_end_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.35$	e2e_tm_g_pp_patient_timeline_Deselecting_dstime_start_changes_plot_and_doesn_t_throw_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Deselecting_dstime_start_throws_validation_error.
shinytest2-tm_g_pp_patient_timeline	💀	$0.01$	$-0.01$	e2e_tm_g_pp_patient_timeline_Starts_with_specified_label_patient_id_cmdecod_aeterm_aetime_start_aetime_end_dstime_start_dstime_end_aerelday_start_aerelday_end_dsrelday_start_dsrelday_en.
shinytest2-tm_g_pp_patient_timeline	👶		$+0.36$	e2e_tm_g_pp_patient_timeline_Starts_with_specified_label_patient_id_cmdecod_aeterm_aetime_start_aetime_end_dstime_start_dstime_end_aerelday_start_aerelday_end_dsrelday_start_dsrelday_end.
shinytest2-tm_g_pp_therapy	💚	$14.40$	$-14.07$	e2e_tm_g_pp_therapy_Changing_font_size_changes_the_plot_and_does_not_throw_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$13.52$	$-13.20$	e2e_tm_g_pp_therapy_Deselection_of_atirel_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.46$	$-13.14$	e2e_tm_g_pp_therapy_Deselection_of_cmdecod_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.38$	$-13.05$	e2e_tm_g_pp_therapy_Deselection_of_cmdose_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.60$	$-13.26$	e2e_tm_g_pp_therapy_Deselection_of_cmdosfrq_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.55$	$-13.23$	e2e_tm_g_pp_therapy_Deselection_of_cmdosu_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$14.32$	$-13.99$	e2e_tm_g_pp_therapy_Deselection_of_cmendy_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.35$	$-13.03$	e2e_tm_g_pp_therapy_Deselection_of_cmindc_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.50$	$-13.18$	e2e_tm_g_pp_therapy_Deselection_of_cmroute_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.26$	$-12.92$	e2e_tm_g_pp_therapy_Deselection_of_cmstdy_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$13.28$	$-12.96$	e2e_tm_g_pp_therapy_Deselection_of_patient_id_throws_validation_error.
shinytest2-tm_g_pp_therapy	💚	$18.35$	$-18.03$	e2e_tm_g_pp_therapy_Module_initializes_in_teal_without_errors_and_produces_output.
shinytest2-tm_g_pp_therapy	💚	$14.69$	$-14.36$	e2e_tm_g_pp_therapy_Selection_of_atirel_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.92$	$-14.59$	e2e_tm_g_pp_therapy_Selection_of_cmdecod_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.71$	$-14.39$	e2e_tm_g_pp_therapy_Selection_of_cmdose_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.50$	$-14.18$	e2e_tm_g_pp_therapy_Selection_of_cmdosfrq_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.82$	$-14.50$	e2e_tm_g_pp_therapy_Selection_of_cmdosu_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.91$	$-14.59$	e2e_tm_g_pp_therapy_Selection_of_cmendy_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.47$	$-14.15$	e2e_tm_g_pp_therapy_Selection_of_cmindc_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.74$	$-14.41$	e2e_tm_g_pp_therapy_Selection_of_cmroute_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.71$	$-14.38$	e2e_tm_g_pp_therapy_Selection_of_cmstdy_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💚	$14.73$	$-14.41$	e2e_tm_g_pp_therapy_Selection_of_patient_id_changes_the_plot_and_table_without_any_validation_errors.
shinytest2-tm_g_pp_therapy	💀	$13.22$	$-13.22$	e2e_tm_g_pp_therapy_Starts_with_specified_label_paramcd_arm_var_buckets_paramcd_subgroup_var_strata_var_and_plot_settings.
shinytest2-tm_g_pp_therapy	👶		$+0.34$	e2e_tm_g_pp_therapy_Starts_with_specified_label_patient_id_atirel_cmdecod_cmindc_cmdose_cmtrt_cmdosu_cmroute_cmdosfrq_cmstdy_cmendy_and_plot_settings.
shinytest2-tm_t_coxreg	👶		$+0.10$	e2e_tm_t_coxreg_Deselection_of_all_covariates_clears_the_table_and_surfaces_a_validation_error_from_the_analysis_pipeline.
shinytest2-tm_t_coxreg	💀	$0.01$	$-0.01$	e2e_tm_t_coxreg_Deselection_of_cov_var_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_basic_info	💀	$0.03$	$-0.03$	unnamed
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Deselection_of_anrind_throws_validation_error.
shinytest2-tm_t_pp_laboratory	👶		$+0.10$	e2e_tm_t_pp_laboratory_Deselection_of_aval_var_throws_validation_error.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Deselection_of_avalu_var_throws_validation_error.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Deselection_of_param_throws_validation_error.
shinytest2-tm_t_pp_laboratory	👶		$+0.10$	e2e_tm_t_pp_laboratory_Deselection_of_paramcd_throws_validation_error.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Deselection_of_patient_id_throws_validation_error.
shinytest2-tm_t_pp_laboratory	👶		$+0.10$	e2e_tm_t_pp_laboratory_Deselection_of_time_points_throws_validation_error.
shinytest2-tm_t_pp_laboratory	👶		$+0.10$	e2e_tm_t_pp_laboratory_Module_initializes_in_teal_without_errors_and_produces_table_output.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Selecting_anrind_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_laboratory	👶		$+0.10$	e2e_tm_t_pp_laboratory_Selecting_aval_var_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Selecting_avalu_var_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Selecting_param_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Selecting_paramcd_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Selecting_patient_id_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_laboratory	👶		$+0.09$	e2e_tm_t_pp_laboratory_Selecting_time_points_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_pp_laboratory	👶		$+0.11$	e2e_tm_t_pp_laboratory_Starts_with_specified_label_patient_id_paramcd_param_time_points_aval_var_avalu_var_anrind_round_value.
shinytest2-tm_t_pp_medical_history	👶		$+0.09$	e2e_tm_t_pp_medical_history_Selecting_mhdistat_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_shift_by_arm	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_Deselection_of_paramcd_throws_validation_error.
shinytest2-tm_t_shift_by_arm	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_Deselection_of_visit_var_throws_validation_error.
shinytest2-tm_t_shift_by_arm	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_Selecting_paramcd_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_shift_by_arm	👶		$+0.10$	e2e_tm_t_shift_by_arm_Selecting_paramcd_values_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_shift_by_arm	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_Selecting_visit_var_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_shift_by_arm	👶		$+0.10$	e2e_tm_t_shift_by_arm_Starts_with_specified_label_arm_var_useNA_add_total.
shinytest2-tm_t_shift_by_arm	💀	$0.02$	$-0.02$	e2e_tm_t_shift_by_arm_Starts_with_specified_label_arm_varparamcd_visit_var_useNA_treatment_flag_var_add_total.
shinytest2-tm_t_shift_by_arm_by_worst	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_by_worst_Deselection_of_paramcd_throws_validation_error.
shinytest2-tm_t_shift_by_arm_by_worst	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_by_worst_Deselection_of_worst_flag_throws_validation_error.
shinytest2-tm_t_shift_by_arm_by_worst	👶		$+0.09$	e2e_tm_t_shift_by_arm_by_worst_Deselection_of_worst_flag_var_throws_validation_error.
shinytest2-tm_t_shift_by_arm_by_worst	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_by_worst_Selecting_worst_flag_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_shift_by_arm_by_worst	👶		$+0.10$	e2e_tm_t_shift_by_arm_by_worst_Selecting_worst_flag_var_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_shift_by_arm_by_worst	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_arm_by_worst_Starts_with_specified_label_arm_var_paramcd_worst_flag_var_aval_var_baseline_var_useNA_treatment_flag_var_add_total.
shinytest2-tm_t_shift_by_arm_by_worst	👶		$+0.11$	e2e_tm_t_shift_by_arm_by_worst_Starts_with_specified_label_useNA_add_total.
shinytest2-tm_t_shift_by_grade	💀	$0.02$	$-0.02$	e2e_tm_t_shift_by_grade_Deselection_of_paramcd_throws_validation_error.
shinytest2-tm_t_shift_by_grade	💀	$0.01$	$-0.01$	e2e_tm_t_shift_by_grade_Selecting_paramcd_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_shift_by_grade	👶		$+0.10$	e2e_tm_t_shift_by_grade_Selecting_paramcd_values_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_smq	👶		$+0.18$	e2e_tm_t_smq_Deselection_of_baskets_throws_validation_error.
shinytest2-tm_t_smq	👶		$+0.18$	e2e_tm_t_smq_Deselection_of_llt_throws_validation_error.
shinytest2-tm_t_smq	💀	$0.01$	$-0.01$	e2e_tm_t_smq_Deselection_of_paramcd_throws_validation_error.
shinytest2-tm_t_smq	💀	$0.01$	$-0.01$	e2e_tm_t_smq_Deselection_of_worst_flag_throws_validation_error.
shinytest2-tm_t_smq	👶		$+0.19$	e2e_tm_t_smq_Selecting_baskets_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_smq	👶		$+0.19$	e2e_tm_t_smq_Selecting_llt_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_smq	💀	$0.01$	$-0.01$	e2e_tm_t_smq_Selecting_paramcd_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_smq	💀	$0.01$	$-0.01$	e2e_tm_t_smq_Selecting_worst_flag_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_summary_by	👶		$+0.10$	e2e_tm_t_summary_by_Deselecting_by_vars_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_summary_by	💀	$0.01$	$-0.01$	e2e_tm_t_summary_by_Deselection_of_arm_var_changes_the_table_and_does_not_throw_validation_errors.
shinytest2-tm_t_summary_by	👶		$+0.10$	e2e_tm_t_summary_by_Selecting_by_vars_changes_the_table_and_does_not_throw_validation_errors.
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Results for commit 36a90d8

♻️ This comment has been updated with latest results.

osenan

LGTM, I tested many validations and they worked. Please review the check of the parentname before merging. It seems there is an error when we are running some tests. https://github.com/insightsengineering/teal.modules.clinical/actions/runs/27220598240/job/80374092259

averissimo · 2026-06-22T13:54:06Z


  y$table <- substitute(
    expr = {
+      stopifnot("No common arm levels in data, please check input." = nrow(parent) > 0)


@osenan non-outdated code here

Do we need this protection? I'm worried about other consequences in other modules.

It was moved to the module to prevent generic error. This is a minor change to protect against a never ending calculation of rtables

Just to clarify. This line is not existing in the code right now, you are asking if it is required. IMO it is not required. I tried to create an example of this scenario to fail but I could not found a case where the app works. Before the app runs the join keys always fails If I filter and keep the parent dataset without rows. It always fails so I expect this protection to be really an edge case that it is not necessary

Without this it risks hanging on forever

Just remove the line and run the example, then select N

osenan

It looks good! We only have to fix one typo

osenan · 2026-06-23T11:30:49Z


  y$table <- substitute(
    expr = {
+      stopifnot("No common arm levels in data, please check input." = nrow(parent) > 0)


Just to clarify. This line is not existing in the code right now, you are asking if it is required. IMO it is not required. I tried to create an example of this scenario to fail but I could not found a case where the app works. Before the app runs the join keys always fails If I filter and keep the parent dataset without rows. It always fails so I expect this protection to be really an edge case that it is not necessary

Co-authored-by: Oriol Senan <35930244+osenan@users.noreply.github.com> Signed-off-by: André Veríssimo <211358+averissimo@users.noreply.github.com>

osenan

We can include the data protection, but take into account that currently is not in the branch, is only a comment on the PR

fixes validation

561ea58

averissimo added the core label Jun 9, 2026

averissimo commented Jun 9, 2026

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Comment thread R/utils.R Outdated

averissimo requested a review from osenan June 9, 2026 16:08

chore: moves check to module

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osenan approved these changes Jun 12, 2026

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osenan self-assigned this Jun 12, 2026

averissimo added 2 commits June 22, 2026 14:43

fix: tests

62cb7c9

fix: minor changes to better reflect original module

74c6a77

averissimo commented Jun 22, 2026

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averissimo requested a review from osenan June 22, 2026 13:54

[skip roxygen] [skip vbump] Roxygen Man Pages Auto Update

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osenan approved these changes Jun 23, 2026

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averissimo and others added 2 commits June 23, 2026 13:10

Apply suggestion from @osenan

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Co-authored-by: Oriol Senan <35930244+osenan@users.noreply.github.com> Signed-off-by: André Veríssimo <211358+averissimo@users.noreply.github.com>

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osenan requested changes Jun 23, 2026

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Comment thread R/tm_t_summary_by.R Outdated

averissimo added 2 commits June 25, 2026 01:06

docs: update document

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style: update

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averissimo merged commit 714fd08 into fix-tm_abnormaliry@279-interactive_variables@main Jun 26, 2026
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averissimo deleted the fix_mods@fix-tm_abnormaliry@279-interactive_variables@main branch June 26, 2026 16:36

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Fixes validation and case when worst flag does not exist - #1543

Fixes validation and case when worst flag does not exist#1543
averissimo merged 9 commits into
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