Add revdepcheck configuration #1228

walkowif · 2024-04-15T16:21:24Z

Add propagations from:

github-actions · 2024-04-15T16:21:38Z

CLA Assistant Lite bot ✅ All contributors have signed the CLA

walkowif · 2024-04-15T16:33:08Z

I have read the CLA Document and I hereby sign the CLA

pawelru · 2024-04-17T15:09:37Z

I have read the CLA Document and I hereby sign the CLA

…gineering/tern into initialize-revdepcheck-action

.github/workflows/on-demand.yaml

walkowif · 2024-04-25T14:32:54Z

We can use this PR as a blueprint of what has to be propagated to repositories across IE to enable revdepcheck.

github-actions · 2024-04-25T14:36:39Z

Code Coverage Summary

Filename                                   Stmts    Miss  Cover    Missing
---------------------------------------  -------  ------  -------  ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
R/abnormal_by_baseline.R                      65       0  100.00%
R/abnormal_by_marked.R                        55       5  90.91%   78-82
R/abnormal_by_worst_grade_worsen.R           116       3  97.41%   242-244
R/abnormal_by_worst_grade.R                   60       0  100.00%
R/abnormal.R                                  43       0  100.00%
R/analyze_variables.R                        162       3  98.15%   488, 512, 628
R/analyze_vars_in_cols.R                     176      33  81.25%   179, 202-207, 222, 236-237, 245-253, 259-265, 344-350
R/bland_altman.R                              92       1  98.91%   43
R/combination_function.R                       9       0  100.00%
R/compare_variables.R                         84       5  94.05%   130-134, 246, 305
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                          50       1  98.00%   67
R/count_missed_doses.R                        34       0  100.00%
R/count_occurrences_by_grade.R               113       5  95.58%   101, 151-153, 156
R/count_occurrences.R                        115       1  99.13%   108
R/count_patients_events_in_cols.R             67       1  98.51%   53
R/count_patients_with_event.R                 47       0  100.00%
R/count_patients_with_flags.R                 58       4  93.10%   56-57, 62-63
R/count_values.R                              27       0  100.00%
R/cox_regression_inter.R                     154       0  100.00%
R/cox_regression.R                           161       0  100.00%
R/coxph.R                                    167       7  95.81%   191-195, 238, 253, 261, 267-268
R/d_pkparam.R                                406       0  100.00%
R/decorate_grob.R                            112       0  100.00%
R/desctools_binom_diff.R                     621      64  89.69%   53, 88-89, 125-126, 129, 199, 223-232, 264, 266, 286, 290, 294, 298, 353, 356, 359, 362, 422, 430, 439, 444-447, 454, 457, 466, 469, 516-517, 519-520, 522-523, 525-526, 593, 604-616, 620, 663, 676, 680
R/df_explicit_na.R                            30       0  100.00%
R/estimate_multinomial_rsp.R                  50       1  98.00%   63
R/estimate_proportion.R                      205      12  94.15%   78-85, 89, 94, 315, 481, 587
R/fit_rsp_step.R                              36       0  100.00%
R/fit_survival_step.R                         36       0  100.00%
R/formatting_functions.R                     183       2  98.91%   143, 278
R/g_forest.R                                 585      60  89.74%   241, 253-256, 261-262, 276, 278, 288-291, 336-339, 346, 415, 502, 515, 519-520, 525-526, 539, 555, 602, 633, 708, 717, 723, 742, 797-817, 820, 831, 850, 905, 908, 1043-1048
R/g_ipp.R                                    133       0  100.00%
R/g_km.R                                     350      57  83.71%   288-291, 310-312, 366-369, 403, 431, 435-478, 485-489
R/g_lineplot.R                               233      32  86.27%   175, 188, 196, 220, 224, 264, 345-352, 370-371, 375-376, 382-392, 484, 490, 492
R/g_step.R                                    68       1  98.53%   109
R/g_waterfall.R                               47       0  100.00%
R/h_adsl_adlb_merge_using_worst_flag.R        73       0  100.00%
R/h_biomarkers_subgroups.R                    45       0  100.00%
R/h_cox_regression.R                         110       0  100.00%
R/h_km.R                                     509      41  91.94%   137, 189-194, 287, 378, 380-381, 392-394, 413, 420-421, 423-425, 433-435, 460, 465-468, 651-654, 1108-1119
R/h_logistic_regression.R                    468       3  99.36%   203-204, 273
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           90      12  86.67%   50-55, 107-112
R/h_response_subgroups.R                     178      18  89.89%   257-270, 329-334
R/h_stack_by_baskets.R                        64       1  98.44%   89
R/h_step.R                                   180       0  100.00%
R/h_survival_biomarkers_subgroups.R           88       6  93.18%   111-116
R/h_survival_duration_subgroups.R            207      18  91.30%   259-271, 336-341
R/imputation_rule.R                           17       2  88.24%   54-55
R/incidence_rate.R                            96       7  92.71%   44-51
R/logistic_regression.R                      102       0  100.00%
R/missing_data.R                              21       3  85.71%   32, 66, 76
R/odds_ratio.R                               109       0  100.00%
R/prop_diff_test.R                            91       0  100.00%
R/prop_diff.R                                265      16  93.96%   62-65, 97, 282-289, 432, 492, 597
R/prune_occurrences.R                         57      10  82.46%   138-142, 188-192
R/response_biomarkers_subgroups.R             68       6  91.18%   189-194
R/response_subgroups.R                       192      10  94.79%   95-100, 276, 324-326
R/riskdiff.R                                  59       7  88.14%   102-105, 114, 124-125
R/rtables_access.R                            38       4  89.47%   159-162
R/score_occurrences.R                         20       1  95.00%   124
R/split_cols_by_groups.R                      49       0  100.00%
R/stat.R                                      59       3  94.92%   73-74, 129
R/summarize_ancova.R                         104       2  98.08%   172, 177
R/summarize_change.R                          30       0  100.00%
R/summarize_colvars.R                         10       0  100.00%
R/summarize_coxreg.R                         172       2  98.84%   203, 430
R/summarize_glm_count.R                      195      27  86.15%   206, 224-256, 301-302
R/summarize_num_patients.R                    93       5  94.62%   108-110, 244-245
R/summarize_patients_exposure_in_cols.R       96       1  98.96%   42
R/survival_biomarkers_subgroups.R             78       6  92.31%   113-118
R/survival_coxph_pairwise.R                   79      11  86.08%   45-46, 58-66
R/survival_duration_subgroups.R              197       6  96.95%   119-124
R/survival_time.R                             79       0  100.00%
R/survival_timepoint.R                       113       7  93.81%   120-126
R/utils_checkmate.R                           68       0  100.00%
R/utils_default_stats_formats_labels.R       116       1  99.14%   72
R/utils_factor.R                             109       2  98.17%   84, 302
R/utils_ggplot.R                             110       1  99.09%   54
R/utils_grid.R                               126       5  96.03%   164, 279-286
R/utils_rtables.R                            100       9  91.00%   39, 46, 51, 58-62, 403-404
R/utils_split_funs.R                          52       2  96.15%   82, 94
R/utils.R                                    141       7  95.04%   118, 121, 124, 128, 137-138, 332
TOTAL                                      10397     561  94.60%

Diff against main

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

Results for commit: 9c5aea1

Minimum allowed coverage is 80%

♻️ This comment has been updated with latest results

github-actions · 2024-04-25T14:37:28Z

Unit Tests Summary

1 files 83 suites 1m 11s ⏱️
836 tests 826 ✅ 10 💤 0 ❌
1 801 runs 1 130 ✅ 671 💤 0 ❌

Results for commit 9c5aea1.

♻️ This comment has been updated with latest results.

Signed-off-by: walkowif <59475134+walkowif@users.noreply.github.com>

.github/workflows/on-demand.yaml

Signed-off-by: walkowif <59475134+walkowif@users.noreply.github.com>

walkowif · 2024-04-25T16:03:29Z

@cicdguy Maybe the changes to .github/workflows/on-demand.yaml and .Rbuildignore can be added in our current propagation?
@pawelru I think the contents of .revdeprefs.yaml will have to be added to each repository separately?

cicdguy · 2024-04-25T16:25:17Z

Yes we can definitely add it to the propagation

pawelru · 2024-04-25T16:49:40Z

@pawelru I think the contents of .revdeprefs.yaml will have to be added to each repository separately?

Yes. Note that this is optional. If missing then all CRAN revdeps are used.

cicdguy

LGTM

cicdguy · 2024-04-29T12:16:31Z

I have read the CLA Document and I hereby sign the CLA

Initialize revdepcheck action

71d8a54

walkowif added 2 commits April 15, 2024 18:22

Empty

2e634d4

Update

9e125dd

walkowif and others added 5 commits April 16, 2024 13:06

Add revdepcheck to the scheduled workflow

dc5f4a8

Move revdepcheck to a separate workflow

76a565b

Empty

7b8ea4c

Update

0f1a93f

empty commit

cb05871

walkowif and others added 19 commits April 17, 2024 17:10

Empty

bbe9f13

Merge branch 'initialize-revdepcheck-action' of github.com:insightsen…

158872c

…gineering/tern into initialize-revdepcheck-action

Empty

771c1da

Merge branch 'main' into initialize-revdepcheck-action

632bf88

empty commit

d0c56de

empty commit

9bec7b9

empty commit

0ad4760

empty commit

62a3463

empty commit

9c9a0ab

empty commit

72eaf81

empty commit

b23e216

test

3ccfb7c

test

4637ca4

empty commit

fa9d232

empty commit

705de76

empty commit

212f782

empty commit

f845f7c

empty commit

f730563

empty commit

86c9d67

walkowif and others added 7 commits April 25, 2024 13:47

Merge branch 'main' into initialize-revdepcheck-action

773df6f

Empty

c995998

Merge branch 'initialize-revdepcheck-action' of github.com:insightsen…

be09c3e

…gineering/tern into initialize-revdepcheck-action

Cleanup

c2215a0

add chevron as revdep

4ec4b09

Update

e4c0847

Merge branch 'initialize-revdepcheck-action' of github.com:insightsen…

a3bc51b

…gineering/tern into initialize-revdepcheck-action

walkowif commented Apr 25, 2024

View reviewed changes

.github/workflows/on-demand.yaml Outdated Show resolved Hide resolved

walkowif requested review from pawelru and cicdguy April 25, 2024 14:31

pawelru approved these changes Apr 25, 2024

View reviewed changes

Update .github/workflows/on-demand.yaml

b2b305d

Signed-off-by: walkowif <59475134+walkowif@users.noreply.github.com>

walkowif commented Apr 25, 2024

View reviewed changes

.github/workflows/on-demand.yaml Outdated Show resolved Hide resolved

Update .github/workflows/on-demand.yaml

a4e0c5a

Signed-off-by: walkowif <59475134+walkowif@users.noreply.github.com>

walkowif changed the title ~~Initialize revdepcheck action~~ Add revdepcheck configuration Apr 26, 2024

pawelru and others added 2 commits April 26, 2024 15:14

typo

ee45ddc

Add missing propagations

46bda09

cicdguy approved these changes Apr 29, 2024

View reviewed changes

Merge branch 'main' into initialize-revdepcheck-action

9c5aea1

cicdguy enabled auto-merge (squash) April 29, 2024 12:14

cicdguy merged commit 8eac4e2 into main Apr 29, 2024
25 checks passed

cicdguy deleted the initialize-revdepcheck-action branch April 29, 2024 12:23

github-actions bot locked and limited conversation to collaborators Apr 29, 2024

Provide feedback

Saved searches

Use saved searches to filter your results more quickly

Add revdepcheck configuration #1228

Add revdepcheck configuration #1228

walkowif commented Apr 15, 2024 •

edited

Loading

github-actions bot commented Apr 15, 2024 •

edited

Loading

walkowif commented Apr 15, 2024

pawelru commented Apr 17, 2024

walkowif commented Apr 25, 2024

github-actions bot commented Apr 25, 2024 •

edited

Loading

github-actions bot commented Apr 25, 2024 •

edited

Loading

walkowif commented Apr 25, 2024

cicdguy commented Apr 25, 2024

pawelru commented Apr 25, 2024

cicdguy left a comment

cicdguy commented Apr 29, 2024

Add revdepcheck configuration #1228

Add revdepcheck configuration #1228

Conversation

walkowif commented Apr 15, 2024 • edited Loading

github-actions bot commented Apr 15, 2024 • edited Loading

walkowif commented Apr 15, 2024

pawelru commented Apr 17, 2024

walkowif commented Apr 25, 2024

github-actions bot commented Apr 25, 2024 • edited Loading

Code Coverage Summary

Diff against main

github-actions bot commented Apr 25, 2024 • edited Loading

Unit Tests Summary

walkowif commented Apr 25, 2024

cicdguy commented Apr 25, 2024

pawelru commented Apr 25, 2024

cicdguy left a comment

Choose a reason for hiding this comment

cicdguy commented Apr 29, 2024

walkowif commented Apr 15, 2024 •

edited

Loading

github-actions bot commented Apr 15, 2024 •

edited

Loading

github-actions bot commented Apr 25, 2024 •

edited

Loading

github-actions bot commented Apr 25, 2024 •

edited

Loading