Last updated on 2024-10-06 05:50:05 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| cards | 13 | ||
| cardx | 13 | ||
| dcurves | 13 | ||
| ggsurvfit | 13 | ||
| gtsummary | 6 | 7 | |
| rstudio.prefs | 13 | ||
| starter | 8 | 5 | |
| tidycmprsk | 13 | ||
| updater | 13 |
Current CRAN status: OK: 13
Current CRAN status: OK: 13
Current CRAN status: OK: 13
Current CRAN status: OK: 13
Current CRAN status: ERROR: 6, OK: 7
Version: 2.0.2
Check: examples
Result: ERROR
Running examples in ‘gtsummary-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: add_ci
> ### Title: Add CI Column
> ### Aliases: add_ci add_ci.tbl_summary
>
> ### ** Examples
>
> ## Don't show:
> if (gtsummary:::is_pkg_installed("cardx", reference_pkg = "gtsummary") && gtsummary:::is_pkg_installed("broom", reference_pkg = "cardx")) (if (getRversion() >= "3.4") withAutoprint else force)({ # examplesIf
+ ## End(Don't show)
+ # Example 1 ----------------------------------
+ trial |>
+ tbl_summary(
+ missing = "no",
+ statistic = all_continuous() ~ "{mean} ({sd})",
+ include = c(marker, response, trt)
+ ) |>
+ add_ci()
+
+ # Example 2 ----------------------------------
+ trial |>
+ select(response, grade) %>%
+ tbl_summary(
+ statistic = all_categorical() ~ "{p}%",
+ missing = "no",
+ include = c(response, grade)
+ ) |>
+ add_ci(pattern = "{stat} ({ci})") |>
+ modify_footnote(everything() ~ NA)
+ ## Don't show:
+ }) # examplesIf
> add_ci(tbl_summary(trial, missing = "no", statistic = all_continuous() ~
+ "{mean} ({sd})", include = c(marker, response, trt)))
Error in `dplyr::mutate()`:
ℹ In argument: `stat = as.character(...)`.
Caused by error in `glue_data()`:
! is.environment(.envir) is not TRUE
Backtrace:
▆
1. ├─(if (getRversion() >= "3.4") withAutoprint else force)(...)
2. │ └─base::source(...)
3. │ ├─base::withVisible(eval(ei, envir))
4. │ └─base::eval(ei, envir)
5. │ └─base::eval(ei, envir)
6. ├─gtsummary::add_ci(...)
7. │ └─gtsummary:::check_class(x, "gtsummary")
8. ├─gtsummary::tbl_summary(...)
9. │ ├─base::structure(...)
10. │ ├─base::append(...)
11. │ └─gtsummary::brdg_summary(...)
12. │ ├─dplyr::left_join(...)
13. │ ├─dplyr:::left_join.data.frame(...)
14. │ │ └─dplyr::auto_copy(x, y, copy = copy)
15. │ │ ├─dplyr::same_src(x, y)
16. │ │ └─dplyr:::same_src.data.frame(x, y)
17. │ │ └─base::is.data.frame(y)
18. │ ├─dplyr::bind_rows(...)
19. │ │ └─rlang::list2(...)
20. │ └─gtsummary::pier_summary_continuous(...)
21. │ ├─... %>% ...
22. │ ├─dplyr::bind_rows(...)
23. │ │ └─rlang::list2(...)
24. │ ├─dplyr::group_map(...)
25. │ └─dplyr:::group_map.data.frame(...)
26. │ └─dplyr:::map2(chunks, group_keys, .f, ...)
27. │ └─base::mapply(.f, .x, .y, MoreArgs = list(...), SIMPLIFY = FALSE)
28. │ └─gtsummary (local) `<fn>`(dots[[1L]][[1L]], dots[[2L]][[1L]])
29. │ ├─dplyr::mutate(...)
30. │ └─dplyr:::mutate.data.frame(...)
31. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by)
32. │ ├─base::withCallingHandlers(...)
33. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns)
34. │ └─mask$eval_all_mutate(quo)
35. │ └─dplyr (local) eval()
36. ├─dplyr::left_join(...)
37. ├─dplyr:::left_join.data.frame(...)
38. │ └─dplyr::auto_copy(x, y, copy = copy)
39. │ ├─dplyr::same_src(x, y)
40. │ └─dplyr:::same_src.data.frame(x, y)
41. │ └─base::is.data.frame(y)
42. ├─glue::glue(...)
43. │ └─glue::glue_data(...)
44. │ └─base::stopifnot(is.environment(.envir))
45. │ └─base::stop(simpleError(msg, call = if (p <- sys.parent(1L)) sys.call(p)))
46. └─dplyr (local) `<fn>`(`<smplErrr>`)
47. └─rlang::abort(message, class = error_class, parent = parent, call = error_call)
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 2.0.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘gtsummary_definition.Rmd’ using rmarkdown
Quitting from lines 27-38 [setup] (gtsummary_definition.Rmd)
Error: processing vignette 'gtsummary_definition.Rmd' failed with diagnostics:
ℹ In argument: `stat = as.character(...)`.
Caused by error in `glue_data()`:
! is.environment(.envir) is not TRUE
--- failed re-building ‘gtsummary_definition.Rmd’
SUMMARY: processing the following file failed:
‘gtsummary_definition.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 2.0.3
Check: examples
Result: ERROR
Running examples in ‘gtsummary-Ex.R’ failed
The error most likely occurred in:
> ### Name: tbl_svysummary
> ### Title: Create a table of summary statistics from a survey object
> ### Aliases: tbl_svysummary
>
> ### ** Examples
>
> ## Don't show:
> if (gtsummary:::is_pkg_installed(c("cardx", "survey"), reference_pkg = "gtsummary")) (if (getRversion() >= "3.4") withAutoprint else force)({ # examplesIf
+ ## End(Don't show)
+ # Example 1 ----------------------------------
+ survey::svydesign(~1, data = as.data.frame(Titanic), weights = ~Freq) |>
+ tbl_svysummary(by = Survived, percent = "row", include = c(Class, Age))
+
+ # Example 2 ----------------------------------
+ # A dataset with a complex design
+ data(api, package = "survey")
+ survey::svydesign(id = ~dnum, weights = ~pw, data = apiclus1, fpc = ~fpc) |>
+ tbl_svysummary(by = "both", include = c(api00, stype)) |>
+ modify_spanning_header(all_stat_cols() ~ "**Survived**")
+ ## Don't show:
+ }) # examplesIf
> tbl_svysummary(survey::svydesign(~1, data = as.data.frame(Titanic), weights = ~Freq),
+ by = Survived, percent = "row", include = c(Class, Age))
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.0.2
Check: examples
Result: ERROR
Running examples in ‘gtsummary-Ex.R’ failed
The error most likely occurred in:
> ### Name: add_ci
> ### Title: Add CI Column
> ### Aliases: add_ci add_ci.tbl_summary
>
> ### ** Examples
>
> ## Don't show:
> if (gtsummary:::is_pkg_installed("cardx", reference_pkg = "gtsummary") && gtsummary:::is_pkg_installed("broom", reference_pkg = "cardx")) (if (getRversion() >= "3.4") withAutoprint else force)({ # examplesIf
+ ## End(Don't show)
+ # Example 1 ----------------------------------
+ trial |>
+ tbl_summary(
+ missing = "no",
+ statistic = all_continuous() ~ "{mean} ({sd})",
+ include = c(marker, response, trt)
+ ) |>
+ add_ci()
+
+ # Example 2 ----------------------------------
+ trial |>
+ select(response, grade) %>%
+ tbl_summary(
+ statistic = all_categorical() ~ "{p}%",
+ missing = "no",
+ include = c(response, grade)
+ ) |>
+ add_ci(pattern = "{stat} ({ci})") |>
+ modify_footnote(everything() ~ NA)
+ ## Don't show:
+ }) # examplesIf
> add_ci(tbl_summary(trial, missing = "no", statistic = all_continuous() ~
+ "{mean} ({sd})", include = c(marker, response, trt)))
Error in `dplyr::mutate()`:
ℹ In argument: `stat = as.character(...)`.
Caused by error in `glue_data()`:
! is.environment(.envir) is not TRUE
Backtrace:
▆
1. ├─(if (getRversion() >= "3.4") withAutoprint else force)(...)
2. │ └─base::source(...)
3. │ ├─base::withVisible(eval(ei, envir))
4. │ └─base::eval(ei, envir)
5. │ └─base::eval(ei, envir)
6. ├─gtsummary::add_ci(...)
7. │ └─gtsummary:::check_class(x, "gtsummary")
8. ├─gtsummary::tbl_summary(...)
9. │ ├─base::structure(...)
10. │ ├─base::append(...)
11. │ └─gtsummary::brdg_summary(...)
12. │ ├─dplyr::left_join(...)
13. │ ├─dplyr:::left_join.data.frame(...)
14. │ │ └─dplyr::auto_copy(x, y, copy = copy)
15. │ │ ├─dplyr::same_src(x, y)
16. │ │ └─dplyr:::same_src.data.frame(x, y)
17. │ │ └─base::is.data.frame(y)
18. │ ├─dplyr::bind_rows(...)
19. │ │ └─rlang::list2(...)
20. │ └─gtsummary::pier_summary_continuous(...)
21. │ ├─... %>% ...
22. │ ├─dplyr::bind_rows(...)
23. │ │ └─rlang::list2(...)
24. │ ├─dplyr::group_map(...)
25. │ └─dplyr:::group_map.data.frame(...)
26. │ └─dplyr:::map2(chunks, group_keys, .f, ...)
27. │ └─base::mapply(.f, .x, .y, MoreArgs = list(...), SIMPLIFY = FALSE)
28. │ └─gtsummary (local) `<fn>`(dots[[1L]][[1L]], dots[[2L]][[1L]])
29. │ ├─dplyr::mutate(...)
30. │ └─dplyr:::mutate.data.frame(...)
31. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by)
32. │ ├─base::withCallingHandlers(...)
33. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns)
34. │ └─mask$eval_all_mutate(quo)
35. │ └─dplyr (local) eval()
36. ├─dplyr::left_join(...)
37. ├─dplyr:::left_join.data.frame(...)
38. │ └─dplyr::auto_copy(x, y, copy = copy)
39. │ ├─dplyr::same_src(x, y)
40. │ └─dplyr:::same_src.data.frame(x, y)
41. │ └─base::is.data.frame(y)
42. ├─glue::glue(...)
43. │ └─glue::glue_data(...)
44. │ └─base::stopifnot(is.environment(.envir))
45. │ └─base::stop(simpleError(msg, call = if (p <- sys.parent(1L)) sys.call(p)))
46. └─dplyr (local) `<fn>`(`<smplErrr>`)
47. └─rlang::abort(message, class = error_class, parent = parent, call = error_call)
Execution halted
Flavors: r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64
Version: 2.0.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘gtsummary_definition.Rmd’ using rmarkdown
Quitting from lines 27-38 [setup] (gtsummary_definition.Rmd)
Error: processing vignette 'gtsummary_definition.Rmd' failed with diagnostics:
ℹ In argument: `stat = as.character(...)`.
Caused by error in `glue_data()`:
! is.environment(.envir) is not TRUE
--- failed re-building ‘gtsummary_definition.Rmd’
SUMMARY: processing the following file failed:
‘gtsummary_definition.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64
Current CRAN status: OK: 13
Current CRAN status: NOTE: 8, OK: 5
Version: 0.1.15
Check: HTML version of manual
Result: NOTE
Found the following HTML validation problems:
create_symlink.html:55:1 (create_symlink.Rd:17): Warning: trimming empty <dt>
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-windows-x86_64
Current CRAN status: OK: 13
Current CRAN status: OK: 13