Add data labels, fix footnote function warnings

[edelarua]

Closes #834

[github-actions]

Code Coverage Summary

Filename                                   Stmts    Miss  Cover    Missing
---------------------------------------  -------  ------  -------  ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
R/abnormal_by_baseline.R                      63       0  100.00%
R/abnormal_by_marked.R                        52       5  90.38%   125-129
R/abnormal_by_worst_grade_worsen.R           113       3  97.35%   233-235
R/abnormal_by_worst_grade.R                   37       0  100.00%
R/abnormal.R                                  40       0  100.00%
R/analyze_vars_in_cols.R                      37       1  97.30%   114
R/combination_function.R                       9       0  100.00%
R/compare_variables.R                        138       3  97.83%   133, 243, 260
R/control_incidence_rate.R                    10       0  100.00%
R/control_logistic.R                           7       0  100.00%
R/control_step.R                              23       1  95.65%   58
R/control_survival.R                          15       0  100.00%
R/count_cumulative.R                          47       1  97.87%   60
R/count_missed_doses.R                        31       0  100.00%
R/count_occurrences_by_grade.R                84       6  92.86%   152-154, 157, 172-173
R/count_occurrences.R                         61       1  98.36%   89
R/count_patients_events_in_cols.R             67       1  98.51%   72
R/count_patients_with_event.R                 72       0  100.00%
R/count_values.R                              24       0  100.00%
R/cox_regression_inter.R                     142       6  95.77%   91, 171-175
R/cox_regression.R                           208      11  94.71%   367-375, 394-396
R/coxph.R                                    168       7  95.83%   224-228, 272, 287, 295, 301-302
R/d_pkparam.R                                406       0  100.00%
R/decorate_grob.R                            167       6  96.41%   269-275, 382, 414, 424, 431
R/desctools_binom_diff.R                     668      68  89.82%   65, 100-101, 141-142, 145, 224, 250-261, 300, 302, 322, 326, 330, 334, 386, 389, 392, 395, 456, 464, 476-477, 483-486, 494, 497, 506, 509, 557-558, 560-561, 563-564, 566-567, 640, 652-665, 670, 717, 730, 734
R/df_explicit_na.R                            30       0  100.00%
R/estimate_multinomial_rsp.R                  47       1  97.87%   56
R/estimate_proportion.R                      198      11  94.44%   74-81, 85, 90, 458, 565
R/fit_rsp_step.R                              36       0  100.00%
R/fit_survival_step.R                         36       0  100.00%
R/footnotes.R                                 11       0  100.00%
R/formats.R                                  115       3  97.39%   101, 138, 148
R/g_forest.R                                 437      23  94.74%   199, 250-251, 318, 335-336, 341-342, 355, 371, 418, 449, 525, 534, 615-619, 629, 697, 700, 824
R/g_lineplot.R                               199      29  85.43%   175, 188, 216, 242-245, 322-329, 347-348, 354-364, 462, 470
R/g_step.R                                    68       1  98.53%   107
R/g_waterfall.R                               47       0  100.00%
R/h_adsl_adlb_merge_using_worst_flag.R        74       0  100.00%
R/h_biomarkers_subgroups.R                    38       0  100.00%
R/h_cox_regression.R                         110       0  100.00%
R/h_logistic_regression.R                    468       3  99.36%   197-198, 265
R/h_map_for_count_abnormal.R                  54       0  100.00%
R/h_pkparam_sort.R                            15       0  100.00%
R/h_response_biomarkers_subgroups.R           74       0  100.00%
R/h_response_subgroups.R                     171      12  92.98%   242-255
R/h_stack_by_baskets.R                        65       1  98.46%   93
R/h_step.R                                   180       0  100.00%
R/h_survival_biomarkers_subgroups.R           78       0  100.00%
R/h_survival_duration_subgroups.R            200      12  94.00%   249-261
R/incidence_rate.R                            93       7  92.47%   68-75
R/individual_patient_plot.R                  133       0  100.00%
R/kaplan_meier_plot.R                        567      61  89.24%   265-300, 309-313, 508, 675-677, 685-687, 713, 720-721, 892, 1073, 1311-1322
R/logistic_regression.R                      101       0  100.00%
R/missing_data.R                              21       3  85.71%   30, 61, 71
R/odds_ratio.R                               106       0  100.00%
R/prop_diff_test.R                            87       0  100.00%
R/prop_diff.R                                255      12  95.29%   95, 250-257, 398, 461, 572
R/prune_occurrences.R                         57      10  82.46%   130-134, 174-178
R/response_biomarkers_subgroups.R             59       0  100.00%
R/response_subgroups.R                       165       4  97.58%   264, 306-308
R/rtables_access.R                            38       4  89.47%   142-145
R/score_occurrences.R                         20       1  95.00%   114
R/split_cols_by_groups.R                      49       0  100.00%
R/stat.R                                      47       3  93.62%   76-77, 132
R/summarize_ancova.R                          95       1  98.95%   187
R/summarize_change.R                          27       0  100.00%
R/summarize_colvars.R                          6       0  100.00%
R/summarize_glm_count.R                      164       4  97.56%   181, 186, 249, 318
R/summarize_num_patients.R                    68       5  92.65%   95-97, 191-192
R/summarize_patients_exposure_in_cols.R       47       0  100.00%
R/summarize_variables.R                      212       2  99.06%   264, 467
R/survival_biomarkers_subgroups.R             59       0  100.00%
R/survival_coxph_pairwise.R                   73       9  87.67%   66-74
R/survival_duration_subgroups.R              172       0  100.00%
R/survival_time.R                             47       0  100.00%
R/survival_timepoint.R                       114       7  93.86%   145-151
R/utils_checkmate.R                           68       0  100.00%
R/utils_factor.R                              87       1  98.85%   93
R/utils_grid.R                               111       5  95.50%   148, 257-263
R/utils_rtables.R                             84       7  91.67%   25, 32-36, 344-345
R/utils.R                                    137      10  92.70%   100, 102, 106, 126, 129, 132, 136, 145-146, 332
TOTAL                                       8809     372  95.78%

Diff against main

Filename      Stmts    Miss  Cover
----------  -------  ------  --------
TOTAL             0       0  +100.00%

Results for commit: a3b5757

Minimum allowed coverage is 80%

♻️ This comment has been updated with latest results

[github-actions]

Unit Tests Summary

       1 files    77 suites   1m 34s ⏱️
   719 tests 719 ✔️     0 💤 0 ❌
1 530 runs  964 ✔️ 566 💤 0 ❌

Results for commit c1326f4.

[github-actions]

Unit Test Performance Difference

Test Suite	$Status$	Time on main	$±Time$	$±Tests$	$±Skipped$	$±Failures$	$±Errors$
abnormal_by_marked	💚	$54.31$	$-12.69$	$0$	$0$	$0$	$0$
g_forest	💚	$3.67$	$-1.01$	$0$	$0$	$0$	$0$
prune_occurrences	💚	$4.29$	$-1.09$	$0$	$0$	$0$	$0$
response_subgroups	💚	$4.54$	$-1.21$	$0$	$0$	$0$	$0$
survival_duration_subgroups	💚	$4.02$	$-1.04$	$0$	$0$	$0$	$0$

Additional test case details

Test Suite	$Status$	Time on main	$±Time$	Test Case
abnormal_by_marked	💚	$9.99$	$-2.34$	count_abnormal_by_marked_works_as_expected
abnormal_by_marked	💚	$9.44$	$-2.14$	s_count_abnormal_by_marked_returns_an_error_when_abn_dir_contains_two_direction_values
abnormal_by_marked	💚	$34.87$	$-8.21$	s_count_abnormal_by_marked_works_as_expected

Results for commit a3b5757

♻️ This comment has been updated with latest results.

[Melkiades]

Lgtm! Thank you for solving the deprecation of footnotes, I forgot to add it to pkgdown's section. Well done with the relabelling too!! I think it is better now for clarity of examples and tests. I am not sure about adding them one by one as you did for tmc for the moment I just copy them in from scda. Eventually, I will do as you do ;)