merge main by munoztd0 · Pull Request #72 · johnsonandjohnson/junco

munoztd0 · 2025-09-12T08:12:23Z

No description provided.

Submitted to cran 0.1.1

* moving out from old CI/CD to new one * Generate tern_utils_default_stats_formats_labels.md

* Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com>

* issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs

This reverts commit 7e8c4af.

github-actions · 2025-09-12T08:22:09Z

Code Coverage Summary

Filename                                        Stmts    Miss  Cover    Missing
--------------------------------------------  -------  ------  -------  ------------------------------------------------------------------------------------------------------------------------------------------------------
R/a_eair_j.R                                      233      11  95.28%   33-35, 148, 174, 522, 604-607, 635
R/a_freq_combos_j.R                                80       1  98.75%   69
R/a_freq_j.R                                      339      56  83.48%   93, 99, 132-140, 153-157, 164-173, 279-287, 301-305, 311, 318-322, 650-653, 658, 664-666, 721, 755, 759-761, 784-788
R/a_freq_resp_var_j.R                              91      38  58.24%   65-70, 114-125, 153-178
R/a_freq_subcol_j.R                                76       3  96.05%   61-63
R/a_summarize_aval_chg_diff.R                     207      42  79.71%   27-34, 47, 101-102, 134, 138-140, 147, 152-154, 179, 198-204, 407, 411, 415, 430-433, 446, 449, 465, 488-494, 507
R/a_summarize_ex_j.R                              107      17  84.11%   80, 100-107, 213, 217, 221, 249-253, 281
R/analyze_values.R                                 11       0  100.00%
R/ancova_rbmi.R                                    70       0  100.00%
R/ancova.R                                         63       1  98.41%   74
R/blank_line.R                                     26       0  100.00%
R/cmp_functions.R                                  28       2  92.86%   59, 70
R/column_stats.R                                  139      40  71.22%   30-48, 89, 107-116, 123-125, 127-139
R/colwidths.R                                     304      96  68.42%   19, 33-102, 107, 131, 253, 260, 306, 324-343, 352-366, 370-376, 381, 392, 404-412, 442-453, 506, 513
R/count_denom_fraction.R                           28       7  75.00%   81, 86-89, 93, 115
R/coxph_hr.R                                       91       0  100.00%
R/coxreg_multivar.R                                58       0  100.00%
R/dps_markup_to_rtf.R                              31      10  67.74%   93-105
R/estimate_proportion_diff.R                       45       0  100.00%
R/event_free.R                                     44       0  100.00%
R/get_ref_info.R                                   14       0  100.00%
R/h_eair_funs.R                                    21       0  100.00%
R/h_freq_funs.R                                   303      51  83.17%   29, 124, 140, 210-219, 241-244, 247-250, 316-322, 362, 366, 370, 374, 378, 418, 431-432, 477, 496, 502, 611, 670, 672, 676, 680-681, 685-690, 710, 731
R/jjcs_num_formats.R                               48       0  100.00%
R/jjcsformats.R                                   238      81  65.97%   28-38, 38-39, 39-40, 40-50, 56-58, 58-62, 64-65, 70-92, 92-97, 99-105, 157, 169, 178, 181, 186, 191, 283, 293, 306, 308, 311, 314, 359
R/junco_utils_default_stats_formats_labels.R       48       0  100.00%
R/kaplan_meier.R                                   48       0  100.00%
R/lsmeans.R                                       128       7  94.53%   55-59, 76-77
R/mmrm_rbmi.R                                      61       0  100.00%
R/mmrm.R                                          104       4  96.15%   42, 64, 104, 155
R/odds_ratio.R                                    164      12  92.68%   118-128, 162-165
R/pool_rbmi.R                                      44      27  38.64%   8-40
R/proportions.R                                    60       1  98.33%   132
R/pruning_functions.R                             175       8  95.43%   169, 316, 319, 355, 365, 401, 442-443
R/rbmi.R                                          124      74  40.32%   125, 131, 375-468
R/relative_risk.R                                  97       5  94.85%   228, 242-245
R/remove_col_count.R                                4       0  100.00%
R/resp01_functions.R                              159      28  82.39%   143-151, 178, 341, 344-353, 355-361
R/s_functions.R                                    27       4  85.19%   4, 7, 16-17
R/sorting_functions.R                              49       2  95.92%   175, 189
R/span_var_map.R                                   15       0  100.00%
R/split_functions.R                               122      31  74.59%   62, 69, 77-95, 103, 106, 113, 116-120, 126, 134-139
R/summarize_ancova.R                              240      52  78.33%   34, 91, 94-117, 120, 124-132, 156-163, 230-233, 241-248
R/summarize_mmrm.R                                 79       0  100.00%
R/summarize_row_counts.R                            8       0  100.00%
R/tabulate_lsmeans_wide.R                         134       0  100.00%
R/tabulate_lsmeans.R                               68       4  94.12%   86-89
R/tabulate_rbmi.R                                 111       0  100.00%
R/tern_utils_default_stats_formats_labels.R       178      17  90.45%   61-68, 71-74, 215-216, 276-277, 326
R/test_proportion_diff.R                           77       1  98.70%   197
R/title_footers.R                                  53      10  81.13%   5, 19-25, 90, 98, 140, 144
R/tt_to_tblfile.R                                 480      49  89.79%   38, 41, 44, 81, 96, 99, 118, 146, 162-176, 198, 208-214, 321-325, 349, 355-357, 361-364, 458-463, 577, 676
R/unicodify.R                                       4       0  100.00%
R/visit_levels.R                                    8       0  100.00%
TOTAL                                            5564     792  85.77%

Diff against main

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

Results for commit: 392d058

Minimum allowed coverage is 80%

♻️ This comment has been updated with latest results

* update version (finally x.x) * merge main (#72) * Update NEWS.md * fix: spellcheck() * ci.cd: add coverage report comment to PR * test: add coverage ignore * Moving out from old CI/CD to new one (#51) * moving out from old CI/CD to new one * Generate tern_utils_default_stats_formats_labels.md * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> * Revert "merge main (#72)" (#74) This reverts commit 7e8c4af. * Update NEWS.md * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs * Submitted to cran 0.1.1 (#75) * update version (finally x.x) * merge main (#72) * Update NEWS.md * fix: spellcheck() * ci.cd: add coverage report comment to PR * test: add coverage ignore * Moving out from old CI/CD to new one (#51) * moving out from old CI/CD to new one * Generate tern_utils_default_stats_formats_labels.md * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> * Revert "merge main (#72)" (#74) This reverts commit 7e8c4af. * Update NEWS.md * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * update: move rbmi to suggest * update: prepare to CRAN release * update: add missing snapshot stats formats * update: rbmi related snapshots * update: rbmi example conditionned * update: remove rbmi rd refs * update: prepare release * update: R CMD check results * update: added suppressPackageStartupMessages(library(rbmi)) * update: remove comment in example * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add rhub check * update: update get_formats_from_stats * update: add rbmi related snaps * update: remove .rtf from .Rbuilignore * [skip style] [skip vbump] Restyle files * update: add insight repos * update: fix linting * update: new R CMD Check * update: new R CMD Check * update: new R CMD Check * [skip style] [skip vbump] Restyle files * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: fix linting * update: fix example * get full coverage of rbmi_pool() by adding tests from rbmi * [skip style] [skip vbump] Restyle files * test rbmi_analyse * [skip style] [skip vbump] Restyle files * add ignores around Air formatter * add tidyr to suggests * update: remove .rprofile * fix: rbmi in rd docs * fix: missing comma * update: news.md * [skip style] [skip vbump] Restyle files * update: news.md * update: WORDLIST * update: do_exclude_split * fix: merge issues with .rd links * fix: WORDLIST --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net>

* a_maxlev fun update: `denom_df` argument replaced by `.alt_df_full`. (#114) * replace denom_df arg with .alt_df_full filled by the rtables machinery * changelog update --------- Co-authored-by: David Muñoz Tord <david.munoz@mailbox.org> * Added `a_two_tier()` analysis function (#122) * first commit. just new add. * new commit - two_tier_afun. * added a_two_tier + unit tests * new unit tests + CHANGELOG update * _pkgdown.yml update * spellcheck update * update: add _pkgdown.yml a_two_tier --------- Co-authored-by: munoztd0 <david.munoztord@mailbox.org> * address bug #120: a_freq_j() - risk diff. Suspected results in the presence of upper row-split and no alt_counts_df (#123) * resolve bug and add test * [skip style] [skip vbump] Restyle files * Trigger CI: empty commit --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Release rbmi suggests (#112) * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs * Submitted to cran 0.1.1 (#75) * update version (finally x.x) * merge main (#72) * Update NEWS.md * fix: spellcheck() * ci.cd: add coverage report comment to PR * test: add coverage ignore * Moving out from old CI/CD to new one (#51) * moving out from old CI/CD to new one * Generate tern_utils_default_stats_formats_labels.md * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> * Revert "merge main (#72)" (#74) This reverts commit 7e8c4af. * Update NEWS.md * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * update: move rbmi to suggest * update: prepare to CRAN release * update: add missing snapshot stats formats * update: rbmi related snapshots * update: rbmi example conditionned * update: remove rbmi rd refs * update: prepare release * update: R CMD check results * update: added suppressPackageStartupMessages(library(rbmi)) * update: remove comment in example * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add rhub check * update: update get_formats_from_stats * update: add rbmi related snaps * update: remove .rtf from .Rbuilignore * [skip style] [skip vbump] Restyle files * update: add insight repos * update: fix linting * update: new R CMD Check * update: new R CMD Check * update: new R CMD Check * [skip style] [skip vbump] Restyle files * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: fix linting * update: fix example * get full coverage of rbmi_pool() by adding tests from rbmi * [skip style] [skip vbump] Restyle files * test rbmi_analyse * [skip style] [skip vbump] Restyle files * add ignores around Air formatter * add tidyr to suggests * update: remove .rprofile * fix: rbmi in rd docs * fix: missing comma * update: news.md * [skip style] [skip vbump] Restyle files * update: news.md * update: WORDLIST * update: do_exclude_split * fix: merge issues with .rd links * fix: WORDLIST --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net> * update: remotes * update: Consistent `tt_to_tbldf()` function behavior with invalid structures (#116) * fix: tests * fix: rd docs * [skip style] [skip vbump] Restyle files * fix: lintr * fix: lintr * [skip style] [skip vbump] Restyle files * update: added WWojciak as contributores * update: remove temp_ilse * update: remove duplicate * update: remove pharmaverseadam * update: keep pharmaverseadam because in news.md * update: merge issues * update: fix warnings --------- Co-authored-by: Wojtek <11532997+wwojciech@users.noreply.github.com> Co-authored-by: Ilse <55379552+iaugusty@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net> Co-authored-by: Ezequiel Anokian <lainjoso@hotmail.com>

* update: remove rbmi rd refs * update: prepare release * update: R CMD check results * added temporary make_row_df_2() and matrix_form_2(), bugfix in interpret_cell_content() * added exporter for figures/graphs * Update docx_exporter_functions.R * Update docx_exporter_functions.R * fix in the footers * improved documentation of function export_graph_as_docx() * Update docx_exporter_functions.R * cmhrms and row mean score: addresses #97 (#98) * add function h_restrict_val and apply in when val = NULL and label_map provided * changelog * wordlist * pkgdown update * document() * add collapse_combo * usethis::use_package("vcdExtra") * move over new functions * use standard formatting for cmhrms * also more standard in the modified afun * add to changelog * disable air formatting - not sure if that would be appreciated here * add `do_exclude_split()` with tests * move wrapper afuns with level exclusions into respective files and document them * remove note about sparse data problems because this has been fixed in vcdExtra repo * remove @importFrom because we use the function directly from its namespace * slight cleanup of cmhrms function code * add full test suite for cmhrms * add tests for h_restrict_val * refresh docs * add tests for a_freq_j funs with label_map * refresh docs * update: package version to 0.1.3 and fix air.toml errors * update: added snapshot to be reviewed * fix a small issue and add snapshots * add new snapshot which seems to have been missing * fix: note on na.omit * fix: linting issue * update: add do_exclude_split to exported --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: munoztd0 <david.munoztord@mailbox.org> Co-authored-by: Daniel Sabanes Bove <DBove@ITS.JNJ.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net> * [skip style] [skip vbump] Restyle files * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update * update tests for round_type * document * code update + styler * update: added suppressPackageStartupMessages(library(rbmi)) * [skip style] [skip vbump] Restyle files * update: remove comment in example * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update * update: add helper function so we don't need to repeat assert rbmi everywhere * lintr * [skip style] [skip vbump] Restyle files * address spelling * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update * update: add helper function so we don't need to repeat assert rbmi everywhere * remove 1 test, covered above * update: add rhub check * update: update get_formats_from_stats * update: add rbmi related snaps * update: remove .rtf from .Rbuilignore * update ref to formatting functions * [skip style] [skip vbump] Restyle files * added unit tests, small bugfix on add_little_gap_bottom_borders_spanning_headers(), added getOption("docx.add_datetime"), minor bugfix in insert_title_hanging_indent_v3() * update: add insight repos * update: fix linting * update: new R CMD Check * update: new R CMD Check * update: new R CMD Check * [skip style] [skip vbump] Restyle files * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * roxygen update + test update * [skip style] [skip vbump] Restyle files * update: new R CMD Check install rbmi * update: fix linting * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update * update: fix example * fix styler * [skip style] [skip vbump] Restyle files * get full coverage of rbmi_pool() by adding tests from rbmi * [skip style] [skip vbump] Restyle files * test rbmi_analyse * [skip style] [skip vbump] Restyle files * add ignores around Air formatter * add tidyr to suggests * update: remove .rprofile * fix: rbmi in rd docs * renamed functions with "_j" suffix * fix: missing comma * update: news.md * [skip style] [skip vbump] Restyle files * update: news.md * update: WORDLIST * a_maxlev fun update: `denom_df` argument replaced by `.alt_df_full`. (#114) * replace denom_df arg with .alt_df_full filled by the rtables machinery * changelog update --------- Co-authored-by: David Muñoz Tord <david.munoz@mailbox.org> * added "experimental" label, updated _pkgdown.yml * orientation default changed to "portrait" * linted docx_exporter_functions.R * updated documentation of argument "pagenum" in both tt_to_tlgrtf() and export_as_docx_j() * set valid_round_type as defaults for round_type * [skip style] [skip vbump] Restyle files * fix: codepencies * fix: lint * fix: .rtf .Rbuildignore * argument "pagenum" only applicable to listings * exported function theme_docx_default_j() * Update docx_exporter_functions.R * added "round_type" argument in tt_to_flextable_j() and export_as_docx_j() * update: vignettea table_and_listing_customizations.rmd * update: title confusion * update: consisten “.” before the file format. * update: For the “Adjusting the Font Size of a Table or Listing” .docx section, can you please update the text accordingly? To display the body of tables in Times New Roman 8-pt for .docx files, the junco::export_as_docx_j function can be called with the theme argument included. The theme argument will specify a juco::theme_docx_default_j function call. * Update DESCRIPTION * update: new line \n * added argument "alignments" to tt_to_tlgrtf(), tt_to_flextable_j() and export_as_docx_j() * update: superscript * update: superscript * update: table misisng * update: multiple files * update: multiple files * update: rename chucks * update: rename chuncks * added "border_mat" argument * Added `a_two_tier()` analysis function (#122) * first commit. just new add. * new commit - two_tier_afun. * added a_two_tier + unit tests * new unit tests + CHANGELOG update * _pkgdown.yml update * spellcheck update * update: add _pkgdown.yml a_two_tier --------- Co-authored-by: munoztd0 <david.munoztord@mailbox.org> * just comments * added unit tests for border_mat argument * update joe's comments * address bug #120: a_freq_j() - risk diff. Suspected results in the presence of upper row-split and no alt_counts_df (#123) * resolve bug and add test * [skip style] [skip vbump] Restyle files * Trigger CI: empty commit --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * minor bugfix in little gap bottom borders in header * update joe's comments * update joe's comments * update joe's comments * Release rbmi suggests (#112) * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs * Submitted to cran 0.1.1 (#75) * update version (finally x.x) * merge main (#72) * Update NEWS.md * fix: spellcheck() * ci.cd: add coverage report comment to PR * test: add coverage ignore * Moving out from old CI/CD to new one (#51) * moving out from old CI/CD to new one * Generate tern_utils_default_stats_formats_labels.md * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> * Revert "merge main (#72)" (#74) This reverts commit 7e8c4af. * Update NEWS.md * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * update: move rbmi to suggest * update: prepare to CRAN release * update: add missing snapshot stats formats * update: rbmi related snapshots * update: rbmi example conditionned * update: remove rbmi rd refs * update: prepare release * update: R CMD check results * update: added suppressPackageStartupMessages(library(rbmi)) * update: remove comment in example * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add rhub check * update: update get_formats_from_stats * update: add rbmi related snaps * update: remove .rtf from .Rbuilignore * [skip style] [skip vbump] Restyle files * update: add insight repos * update: fix linting * update: new R CMD Check * update: new R CMD Check * update: new R CMD Check * [skip style] [skip vbump] Restyle files * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: fix linting * update: fix example * get full coverage of rbmi_pool() by adding tests from rbmi * [skip style] [skip vbump] Restyle files * test rbmi_analyse * [skip style] [skip vbump] Restyle files * add ignores around Air formatter * add tidyr to suggests * update: remove .rprofile * fix: rbmi in rd docs * fix: missing comma * update: news.md * [skip style] [skip vbump] Restyle files * update: news.md * update: WORDLIST * update: do_exclude_split * fix: merge issues with .rd links * fix: WORDLIST --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net> * update: remotes * update: Consistent `tt_to_tbldf()` function behavior with invalid structures (#116) * fix: tests * fix: rd docs * fix: remotes * fix: NAMESPACE * fix: tests * fix: rtables.officer::: * added Boolean "watermark" argument * fix: code link issues * fixed lints * Merge branch '40_docx_exporter' of https://github.com/johnsonandjohnson/junco into 40_docx_exporter * [skip style] [skip vbump] Restyle files * fix: lintr * fix: lintr * [skip style] [skip vbump] Restyle files * fix: quarto vignette rcmdcheck issues * minor changes, updated snapshots * Update export_as_docx_j.Rd * Update DESCRIPTION * fixed missing link error in roxygen2 documentation * updated snapshots * updated snapshots * minor tweaks in unit tests test-count_pct.R and test-varia.R to make it pass the CICD pipeline * update: added WWojciak as contributores * update: remove temp_ilse * update: remove duplicate * update: remove pharmaverseadam * update: keep pharmaverseadam because in news.md * [skip style] [skip vbump] Restyle files * update: merge issues * update: fix warnings * minor tweaks in unit tests test-count_pct.R and test-varia.R to make it pass the CICD pipeline * updated lintr to check the pipe lints, linted again, updated snapshots * [skip style] [skip vbump] Restyle files * updated WORDLIST and CHANGELOG.md files, spell checks * fixed lints, updated _pkgdown.yml to include topic "theme_docx_default_j" * [skip style] [skip vbump] Restyle files * update: remove styler * update: fix linter * update: skip_on_cran() * update: comment out macos * add Remotes to use main branch from tern etc. * 116 tt to tbldf function behavior with invalid structures (#124) * a_maxlev fun update: `denom_df` argument replaced by `.alt_df_full`. (#114) * replace denom_df arg with .alt_df_full filled by the rtables machinery * changelog update --------- Co-authored-by: David Muñoz Tord <david.munoz@mailbox.org> * Added `a_two_tier()` analysis function (#122) * first commit. just new add. * new commit - two_tier_afun. * added a_two_tier + unit tests * new unit tests + CHANGELOG update * _pkgdown.yml update * spellcheck update * update: add _pkgdown.yml a_two_tier --------- Co-authored-by: munoztd0 <david.munoztord@mailbox.org> * address bug #120: a_freq_j() - risk diff. Suspected results in the presence of upper row-split and no alt_counts_df (#123) * resolve bug and add test * [skip style] [skip vbump] Restyle files * Trigger CI: empty commit --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Release rbmi suggests (#112) * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs * Submitted to cran 0.1.1 (#75) * update version (finally x.x) * merge main (#72) * Update NEWS.md * fix: spellcheck() * ci.cd: add coverage report comment to PR * test: add coverage ignore * Moving out from old CI/CD to new one (#51) * moving out from old CI/CD to new one * Generate tern_utils_default_stats_formats_labels.md * Main ci cd (#53) * Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> * Issue and PR templates (#60) * issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> * Revert "merge main (#72)" (#74) This reverts commit 7e8c4af. * Update NEWS.md * [skip roxygen] [skip vbump] Roxygen Man Pages Auto Update --------- Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * update: move rbmi to suggest * update: prepare to CRAN release * update: add missing snapshot stats formats * update: rbmi related snapshots * update: rbmi example conditionned * update: remove rbmi rd refs * update: prepare release * update: R CMD check results * update: added suppressPackageStartupMessages(library(rbmi)) * update: remove comment in example * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add helper function so we don't need to repeat assert rbmi everywhere * update: add rhub check * update: update get_formats_from_stats * update: add rbmi related snaps * update: remove .rtf from .Rbuilignore * [skip style] [skip vbump] Restyle files * update: add insight repos * update: fix linting * update: new R CMD Check * update: new R CMD Check * update: new R CMD Check * [skip style] [skip vbump] Restyle files * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: new R CMD Check install rbmi * update: fix linting * update: fix example * get full coverage of rbmi_pool() by adding tests from rbmi * [skip style] [skip vbump] Restyle files * test rbmi_analyse * [skip style] [skip vbump] Restyle files * add ignores around Air formatter * add tidyr to suggests * update: remove .rprofile * fix: rbmi in rd docs * fix: missing comma * update: news.md * [skip style] [skip vbump] Restyle files * update: news.md * update: WORDLIST * update: do_exclude_split * fix: merge issues with .rd links * fix: WORDLIST --------- Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net> * update: remotes * update: Consistent `tt_to_tbldf()` function behavior with invalid structures (#116) * fix: tests * fix: rd docs * [skip style] [skip vbump] Restyle files * fix: lintr * fix: lintr * [skip style] [skip vbump] Restyle files * update: added WWojciak as contributores * update: remove temp_ilse * update: remove duplicate * update: remove pharmaverseadam * update: keep pharmaverseadam because in news.md * update: merge issues * update: fix warnings --------- Co-authored-by: Wojtek <11532997+wwojciech@users.noreply.github.com> Co-authored-by: Ilse <55379552+iaugusty@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net> Co-authored-by: Ezequiel Anokian <lainjoso@hotmail.com> * Add the two new proportion difference estimation methods to `estimate_proportion_diff()` * update to jjcsformat_range_fct per suggestion Joe * remove helper functions for testing prop. differences which are not needed any longer in junco * the stats function for testing proportion differences is not needed anymore either * refresh docs * update snapshot * update change log, word list, link in doc * refresh docs * [skip style] [skip vbump] Restyle files * [skip style] [skip vbump] Restyle files * add censor_char to function * Trigger GitHub actions * Update test-docx_exporter_functions.R * add censor_char to function * Update R-CMD-check.yaml * update: lintr * update: lintr * Update test-docx_exporter_functions.R * made watermarks darker * remove deleted function from pkgdown * update: remotes * update: update to have CRAN check.yaml * fix: update of vcdExtra * fix: update of vcdExtra & add cran-comments.md * fix: update of vcdExtra * fix: update of vcdExtra * fix: update of pipeline check_CRAN.yml * update to tt_to_tbldf and add tests * fix: update of pipeline check_CRAN.yml * fix: s_cmhrms_j skip on linux * in calc_one_visit only sas and iec rounding for now * fix: update of cran comments * [skip style] [skip vbump] Restyle files * trigger checks * fix: DESCRIPTION * Update DESCRIPTION * Update DESCRIPTION to vcdExtra back to normal fixing it in another PR * remove expect silent (#130) * remove expect silent * fix: prop_diff_test * Update WORDLIST * Rework calc_one_visit, add 'support' for 'default' format to jjcsformats * [skip style] [skip vbump] Restyle files * Update test-cmhrms.R * Update test-cmhrms.R * move rgl.useNULL option to testthat.R * check mac tests (#131) * check mac tests * fix: mac tests rgl instead xquartz * fix: inheritParams in WORDLIST * resolve conflict * v0.1.2_cran (#136) * Update README.md * Update README.md * update: rtables 0.6.15 * update: tern 0.9.10 * update: CHANGELOG.md * update: spelling * Update README.md * Update DESCRIPTION tidytlg 0.11.0 * Update docx_exporter_functions.R * fix: update [-c(1:2,9)] to remove last NULL vector index * fix: new update tidytlg border and landscape * fix: lintr * add: snaps .csv * fix: extraneous empty line when we turn off timestamp line * force text comparison --------- Co-authored-by: David Muñoz Tord <david.munoz@mailbox.org> Co-authored-by: munoztd0 <david.munoztord@mailbox.org> Co-authored-by: Ezequiel Anokian <lainjoso@hotmail.com> * fix: lint * add: snaps * remove: old pipeline * fix: lintr * update: README --------- Co-authored-by: Ezequiel Anokian <lainjoso@hotmail.com> Co-authored-by: Ilse <55379552+iaugusty@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Daniel Sabanes Bove <DBove@ITS.JNJ.com> Co-authored-by: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net> Co-authored-by: iaugusty <iaugusty@its.jnj.com> Co-authored-by: Wojtek <11532997+wwojciech@users.noreply.github.com> Co-authored-by: RMao6 <rmao6@its.jnj.com> Co-authored-by: Gabe Becker <gabembecker@gmail.com> Co-authored-by: Ezequiel <4982139+eanokian@users.noreply.github.com> Co-authored-by: Daniel Sabanes Bove <danielinteractive@users.noreply.github.com>

munoztd0 and others added 9 commits July 7, 2025 17:22

Update NEWS.md

8da6090

fix: spellcheck()

be0eb05

ci.cd: add coverage report comment to PR

f722fc5

test: add coverage ignore

a8dfbbf

Merge branch 'main' into submitted_to_cran_0.1.1

277fedd

Merge pull request #29 from johnsonandjohnson/submitted_to_cran_0.1.1

9782210

Submitted to cran 0.1.1

Moving out from old CI/CD to new one (#51)

abe917e

* moving out from old CI/CD to new one * Generate tern_utils_default_stats_formats_labels.md

Main ci cd (#53)

26e7c34

* Update README.md withnew links * Update inspect.yaml to check * Update pkgdown.yaml to Docs * Update README.md * Add hexagon sticker (#38) * Generate pkgdown site favicon * add logo to inspect unit reports --------- Co-authored-by: RMao6 <rmao6@its.jnj.com>

Issue and PR templates (#60)

392d058

* issue and PR templates * Update pkgdown.yaml stop running pkgdown for draft PRs

munoztd0 merged commit 7e8c4af into submitted_to_cran_0.1.1 Sep 12, 2025
42 checks passed

munoztd0 added a commit that referenced this pull request Sep 12, 2025

Revert "merge main (#72)"

f6ec2a8

This reverts commit 7e8c4af.

munoztd0 mentioned this pull request Sep 12, 2025

Revert "merge main" #74

Merged

munoztd0 added a commit that referenced this pull request Sep 12, 2025

Revert "merge main (#72)" (#74)

68e0ead

This reverts commit 7e8c4af.

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munoztd0 merged 9 commits intosubmitted_to_cran_0.1.1from
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