* using log directory 'd:/RCompile/CRANincoming/R-devel/gtsummary.Rcheck'
* using R Under development (unstable) (2025-04-11 r88138 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'gtsummary/DESCRIPTION' ... OK
* this is package 'gtsummary' version '2.2.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [20s] OK
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'gtsummary' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [36s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [120s] ERROR
Running examples in 'gtsummary-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: proportion_summary
> ### Title: Summarize a proportion
> ### Aliases: proportion_summary
> 
> ### ** Examples
> 
> # Example 1 ----------------------------------
> Titanic |>
+   as.data.frame() |>
+   tbl_custom_summary(
+     include = c("Age", "Class"),
+     by = "Sex",
+     stat_fns = ~ proportion_summary("Survived", "Yes", weights = "Freq"),
+     statistic = ~ "{prop}% ({n}/{N}) [{conf.low}-{conf.high}]",
+     digits = ~ list(
+       prop = label_style_percent(digits = 1),
+       n = 0,
+       N = 0,
+       conf.low = label_style_percent(),
+       conf.high = label_style_percent()
+     ),
+     overall_row = TRUE,
+     overall_row_last = TRUE
+   ) |>
+   bold_labels() |>
+   modify_footnote_header("Proportion (%) of survivors (n/N) [95% CI]", columns = all_stat_cols())
The following errors were returned during `modify_footnote_header()`:
✖ For variable `.overall` (`Sex = "Male"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Age` (`Sex = "Male"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Age` (`Sex = "Male"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Male"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Male"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Male"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Male"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `.overall` (`Sex = "Female"`) and "complex" statistic: there is
  no package called 'broom'
✖ For variable `Age` (`Sex = "Female"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Age` (`Sex = "Female"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Female"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Female"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Female"`) and "complex" statistic: there is no
  package called 'broom'
✖ For variable `Class` (`Sex = "Female"`) and "complex" statistic: there is no
  package called 'broom'
Error in `modify_footnote_header()`:
! Statistic "prop", "n", "N", "conf.low", and "conf.high" is not
  available for variable "Age".
ℹ Select among "N_obs", "N_miss", "N_nonmiss", "p_miss", "p_nonmiss", and
  "complex".
Backtrace:
     ▆
  1. ├─gtsummary::modify_footnote_header(...)
  2. ├─gtsummary::bold_labels(...)
  3. └─gtsummary::tbl_custom_summary(...)
  4.   └─gtsummary:::.check_stats_available(cards = cards, statistic = statistic)
  5.     └─gtsummary:::imap(...)
  6.       └─gtsummary:::map2(.x, names(.x) %||% seq_along(.x), .f, ...)
  7.         └─base::mapply(.f, .x, .y, MoreArgs = list(...), SIMPLIFY = FALSE)
  8.           └─gtsummary (local) `<fn>`(dots[[1L]][[1L]], dots[[2L]][[1L]])
  9.             └─cli::cli_abort(...)
 10.               └─rlang::abort(...)
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [33s] ERROR
  Running 'spelling.R'
  Running 'testthat.R' [33s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(gtsummary)
  
  Attaching package: 'gtsummary'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  > 
  > test_check("gtsummary", stop_on_warning = TRUE)
  Starting 2 test processes
  [ FAIL 1 | WARN 0 | SKIP 99 | PASS 47 ]
  
  ══ Skipped tests (99) ══════════════════════════════════════════════════════════
  • On CRAN (98): 'test-add_ci.tbl_summary.R:1:1',
    'test-add_ci.tbl_svysummary.R:1:1', 'test-add_difference.tbl_summary.R:1:1',
    'test-add_difference.tbl_svysummary.R:1:1', 'test-add_glance.R:1:1',
    'test-add_global_p.tbl_regression.R:1:1', 'test-add_n.tbl_regression.R:1:1',
    'test-add_global_p.tbl_uvregression.R:1:1', 'test-add_n.tbl_summary.R:1:1',
    'test-add_n.tbl_survfit.R:1:1', 'test-add_n.tbl_svysummary.R:1:1',
    'test-add_n.tbl_uvregression.R:1:1', 'test-add_nevent.tbl_regression.R:1:1',
    'test-add_nevent.tbl_survfit.R:1:1',
    'test-add_nevent.tbl_uvregression.R:1:1',
    'test-add_overall.tbl_ard_summary.R:1:1',
    'test-add_overall.tbl_continuous.R:1:1',
    'test-add_overall.tbl_custom_summary.R:1:1',
    'test-add_overall.tbl_hierarchical.R:1:1',
    'test-add_overall.tbl_summary.R:1:1',
    'test-add_overall.tbl_svysummary.R:1:1', 'test-add_p.tbl_continuous.R:1:1',
    'test-add_p.tbl_cross.R:1:1', 'test-add_p.tbl_survfit.R:1:1',
    'test-add_p.tbl_summary.R:1:1', 'test-add_p.tbl_svysummary.R:1:1',
    'test-add_q.R:1:1', 'test-add_stat.R:1:1',
    'test-add_significance_stars.R:1:1', 'test-add_stat_label.R:1:1',
    'test-add_stat_label.tbl_ard_summary.R:1:1',
    'test-add_stat_label.tbl_svysummary.R:1:1', 'test-add_vif.R:1:1',
    'test-as_flex_table.R:1:1', 'test-as_gt.R:1:1', 'test-as_hux_table.R:1:1',
    'test-as_kable.R:1:1', 'test-as_kable_extra.R:1:1', 'test-as_tibble.R:1:1',
    'test-bold_italicize_labels_levels.R:1:1', 'test-bold_p.R:1:1',
    'test-combine_terms.R:1:1', 'test-custom_tidiers.R:1:1',
    'test-filter_hierarchical.R:1:1', 'test-gather_ard.R:1:1',
    'test-label_style.R:1:1', 'test-inline_text.R:1:1',
    'test-modify_abbreviation.R:1:1', 'test-modify_bold_italic.R:1:1',
    'test-modify_caption.R:1:1', 'test-modify_column_alignment.R:1:1',
    'test-modify_column_hide.R:1:1', 'test-modify_column_indent.R:1:1',
    'test-modify_column_merge.R:1:1', 'test-modify_fmt_fun.R:1:1',
    'test-modify_footnote_body.R:1:1', 'test-modify_footnote.R:1:1',
    'test-modify_footnote_header.R:1:1',
    'test-modify_footnote_spanning_header.R:1:1', 'test-modify_header.R:1:1',
    'test-modify_source_note.R:1:1', 'test-modify_spanning_header.R:1:1',
    'test-modify_table_body.R:1:1', 'test-modify_table_styling.R:1:1',
    'test-plot.tbl_regression.R:1:1', 'test-plot.tbl_uvregression.R:1:1',
    'test-remove_row_type.R:1:1', 'test-scoping_gtsummary.R:1:1',
    'test-select_helpers.R:1:1', 'test-separate_p_footnotes.R:1:1',
    'test-show_header_names.R:1:1', 'test-sort_filter_p.R:1:1',
    'test-sort_hierarchical.R:1:1', 'test-style_pvalue.R:49:3',
    'test-tbl_ard_continuous.R:1:1', 'test-tbl_ard_hierarchical.R:1:1',
    'test-tbl_ard_summary.R:1:1', 'test-tbl_ard_wide_summary.R:1:1',
    'test-tbl_butcher.R:1:1', 'test-tbl_continuous.R:1:1',
    'test-tbl_cross.R:1:1', 'test-tbl_custom_summary.R:1:1',
    'test-tbl_hierarchical.R:1:1', 'test-tbl_likert.R:1:1',
    'test-tbl_merge.R:1:1', 'test-tbl_regression.R:1:1',
    'test-tbl_regression_methods.R:1:1', 'test-tbl_split.R:1:1',
    'test-tbl_stack.R:1:1', 'test-tbl_strata.R:1:1', 'test-tbl_summary.R:1:1',
    'test-tbl_survfit.R:1:1', 'test-tbl_svysummary.R:1:1',
    'test-tbl_uvregression.R:1:1', 'test-tbl_wide_summary.R:1:1',
    'test-theme_elements_gtsummary.R:1:1', 'test-theme_gtsummary.R:1:1',
    'test-tbl_strata_nested_stack.R:127:3'
  • is_pkg_installed(c("cardx", "car", "broom", "broom.helpers", (1):
    'test-add_variable_group_header.R:1:1'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-modify_missing_symbol.R:4:3'): modify_missing_symbol() ─────────
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])`: there is no package called 'haven'
  Backtrace:
       ▆
    1. ├─testthat::expect_equal(...) at test-modify_missing_symbol.R:4:3
    2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
    3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
    4. ├─base::unique(...)
    5. ├─base::unlist(...)
    6. ├─... %>% 2[c("estimate", "conf.low")]
    7. ├─base::as.data.frame(...)
    8. ├─gtsummary::modify_missing_symbol(...)
    9. │ └─gtsummary:::check_class(x, "gtsummary")
   10. ├─gtsummary::tbl_regression(lm(marker ~ trt, data = trial))
   11. ├─gtsummary:::tbl_regression.default(lm(marker ~ trt, data = trial))
   12. │ ├─dplyr::relocate(...)
   13. │ └─gtsummary:::tidy_prep(...)
   14. │   ├─... %>% ...
   15. │   └─rlang::eval_tidy(...)
   16. ├─broom.helpers::tidy_plus_plus(...)
   17. │ ├─broom.helpers::tidy_add_contrasts(...)
   18. │ │ └─broom.helpers::tidy_get_model(x)
   19. │ └─broom.helpers::tidy_identify_variables(res, quiet = quiet)
   20. │   ├─broom.helpers::model_identify_variables(model)
   21. │   └─broom.helpers:::model_identify_variables.default(model)
   22. │     ├─broom.helpers::model_list_variables(model, only_variable = TRUE)
   23. │     └─broom.helpers:::model_list_variables.default(model, only_variable = TRUE)
   24. │       ├─broom.helpers:::.compute_var_label(...)
   25. │       ├─dplyr::mutate(...)
   26. │       └─broom.helpers:::.add_label_attr(...)
   27. │         └─base::unlist(labelled::var_label(model_get_model_frame(model)))
   28. └─base::loadNamespace(x)
   29.   ├─base::namespaceImportFrom(...)
   30.   │ └─base::asNamespace(ns)
   31.   └─base::loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
   32.     └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   33.       └─base (local) withOneRestart(expr, restarts[[1L]])
   34.         └─base (local) doWithOneRestart(return(expr), restart)
  
  [ FAIL 1 | WARN 0 | SKIP 99 | PASS 47 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
--- re-building 'gtsummary_definition.Rmd' using rmarkdown

Quitting from gtsummary_definition.Rmd:28-39 [setup]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `loadNamespace()`:
! there is no package called 'haven'
---
Backtrace:
     ▆
  1. ├─gtsummary::bold_p(...)
  2. ├─gtsummary::tbl_regression(lm(age ~ grade + marker, trial))
  3. ├─gtsummary:::tbl_regression.default(lm(age ~ grade + marker, trial))
  4. │ ├─dplyr::relocate(...)
  5. │ └─gtsummary:::tidy_prep(...)
  6. │   ├─... %>% ...
  7. │   └─rlang::eval_tidy(...)
  8. ├─broom.helpers::tidy_plus_plus(...)
  9. │ ├─broom.helpers::tidy_add_contrasts(...)
 10. │ │ └─broom.helpers::tidy_get_model(x)
 11. │ └─broom.helpers::tidy_identify_variables(res, quiet = quiet)
 12. │   ├─broom.helpers::model_identify_variables(model)
 13. │   └─broom.helpers:::model_identify_variables.default(model)
 14. │     ├─broom.helpers::model_list_variables(model, only_variable = TRUE)
 15. │     └─broom.helpers:::model_list_variables.default(model, only_variable = TRUE)
 16. │       ├─broom.helpers:::.compute_var_label(...)
 17. │       ├─dplyr::mutate(...)
 18. │       └─broom.helpers:::.add_label_attr(...)
 19. │         └─base::unlist(labelled::var_label(model_get_model_frame(model)))
 20. └─base::loadNamespace(x)
 21.   ├─base::namespaceImportFrom(...)
 22.   │ └─base::asNamespace(ns)
 23.   └─base::loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
 24.     └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
 25.       └─base (local) withOneRestart(expr, restarts[[1L]])
 26.         └─base (local) doWithOneRestart(return(expr), restart)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'gtsummary_definition.Rmd' failed with diagnostics:
there is no package called 'haven'
--- failed re-building 'gtsummary_definition.Rmd'

SUMMARY: processing the following file failed:
  'gtsummary_definition.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [30s] OK
* checking HTML version of manual ... [27s] OK
* DONE
Status: 3 ERRORs