Last updated on 2025-12-09 13:50:34 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.9.9 | 28.25 | 652.98 | 681.23 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.9.9 | 19.71 | 418.06 | 437.77 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.9.9 | 71.00 | 331.80 | 402.80 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.9.9 | 121.00 | 388.95 | 509.95 | ERROR | |
| r-devel-windows-x86_64 | 0.9.9 | 34.00 | 629.00 | 663.00 | OK | |
| r-patched-linux-x86_64 | 0.9.9 | 30.32 | 605.49 | 635.81 | OK | |
| r-release-linux-x86_64 | 0.9.9 | 28.38 | 605.98 | 634.36 | OK | |
| r-release-macos-arm64 | 0.9.9 | OK | ||||
| r-release-macos-x86_64 | 0.9.9 | 23.00 | 253.00 | 276.00 | OK | |
| r-release-windows-x86_64 | 0.9.9 | 35.00 | 593.00 | 628.00 | OK | |
| r-oldrel-macos-arm64 | 0.9.9 | NOTE | ||||
| r-oldrel-macos-x86_64 | 0.9.9 | 26.00 | 269.00 | 295.00 | NOTE | |
| r-oldrel-windows-x86_64 | 0.9.9 | 49.00 | 826.00 | 875.00 | NOTE |
Version: 0.9.9
Check: examples
Result: ERROR
Running examples in ‘tern-Ex.R’ failed
The error most likely occurred in:
> ### Name: abnormal
> ### Title: Count patients with abnormal range values
> ### Aliases: abnormal count_abnormal s_count_abnormal a_count_abnormal
> ### Keywords: internal
>
> ### ** Examples
>
> library(dplyr)
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
filter, lag
The following objects are masked from ‘package:base’:
intersect, setdiff, setequal, union
>
> df <- data.frame(
+ USUBJID = as.character(c(1, 1, 2, 2)),
+ ANRIND = factor(c("NORMAL", "LOW", "HIGH", "HIGH")),
+ BNRIND = factor(c("NORMAL", "NORMAL", "HIGH", "HIGH")),
+ ONTRTFL = c("", "Y", "", "Y"),
+ stringsAsFactors = FALSE
+ )
>
> # Select only post-baseline records.
> df <- df %>%
+ filter(ONTRTFL == "Y")
>
> # Layout creating function.
> basic_table() %>%
+ count_abnormal(var = "ANRIND", abnormal = list(high = "HIGH", low = "LOW")) %>%
+ build_table(df)
Error in match.arg(round_type) : 'arg' must be of length 1
Calls: %>% ... <Anonymous> -> format_rcell -> format_value -> match.arg
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.9.9
Check: tests
Result: ERROR
Running ‘testthat.R’ [26s/27s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> pkg_name <- "tern"
> library(testthat)
> test_check(pkg_name, reporter = ParallelProgressReporter$new())
Loading required package: tern
Loading required package: rtables
Loading required package: formatters
Attaching package: 'formatters'
The following object is masked from 'package:base':
%||%
Loading required package: magrittr
Attaching package: 'magrittr'
The following objects are masked from 'package:testthat':
equals, is_less_than, not
Attaching package: 'rtables'
The following object is masked from 'package:utils':
str
Registered S3 method overwritten by 'tern':
method from
tidy.glm broom
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
✔ | F W S OK | Context
⠋ [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ] Starting up...
✖ | 3 4 4 | abnormal [1.7s]
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal.R:98:3'): count_abnormal works with default arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df) at test-abnormal.R:98:3
2. └─rtables::build_table(., df)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-abnormal.R:122:3'): count_abnormal works with custom arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df2) at test-abnormal.R:122:3
2. └─rtables::build_table(., df2)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-abnormal.R:154:3'): count_abnormal works with default arguments and visit
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df) at test-abnormal.R:154:3
2. └─rtables::build_table(., df)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 2 3 8 | abnormal_by_baseline
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_by_baseline.R:89:3'): count_abnormal_by_baseline works with default arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df) at test-abnormal_by_baseline.R:89:3
2. └─rtables::build_table(., df)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
Error ('test-abnormal_by_baseline.R:103:3'): count_abnormal_by_baseline works with custom arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df2) at test-abnormal_by_baseline.R:103:3
2. └─rtables::build_table(., df2)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 1 2 3 | abnormal_by_marked [8.1s]
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_by_marked.R:242:3'): count_abnormal_by_marked works as expected
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df = adlb_f) at test-abnormal_by_marked.R:242:3
2. └─rtables::build_table(., df = adlb_f)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 1 1 2 | abnormal_by_worst_grade
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_by_worst_grade.R:60:3'): count_abnormal_by_worst_grade works as expected
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df = adlb_f) at test-abnormal_by_worst_grade.R:60:3
2. └─rtables::build_table(., df = adlb_f)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::make_row_df(...)
17. └─rtables::make_row_df(...)
18. └─rtables (local) .local(...)
19. ├─formatters::make_row_df(...)
20. └─rtables::make_row_df(...)
21. └─rtables (local) .local(...)
22. ├─formatters::pagdfrow(...)
23. │ └─base::data.frame(...)
24. ├─formatters::nlines(...)
25. └─rtables::nlines(...)
26. ├─base::as.vector(get_formatted_cells(x))
27. ├─rtables::get_formatted_cells(x)
28. └─rtables::get_formatted_cells(x)
29. ├─base::matrix(...)
30. ├─base::unlist(...)
31. └─base::Map(...)
32. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
33. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
34. └─rtables::format_rcell(...)
35. └─formatters::format_value(...)
36. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 1 7 11 | abnormal_lab_worsen_by_baseline [1.5s]
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_lab_worsen_by_baseline.R:195:3'): count_abnormal_lab_worsen_by_baseline
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df = df, alt_counts_df = tern_ex_adsl) at test-abnormal_lab_worsen_by_baseline.R:195:3
2. └─rtables::build_table(., df = df, alt_counts_df = tern_ex_adsl)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::make_row_df(...)
17. └─rtables::make_row_df(...)
18. └─rtables (local) .local(...)
19. ├─formatters::make_row_df(...)
20. └─rtables::make_row_df(...)
21. └─rtables (local) .local(...)
22. ├─formatters::pagdfrow(...)
23. │ └─base::data.frame(...)
24. ├─formatters::nlines(...)
25. └─rtables::nlines(...)
26. ├─base::as.vector(get_formatted_cells(x))
27. ├─rtables::get_formatted_cells(x)
28. └─rtables::get_formatted_cells(x)
29. ├─base::matrix(...)
30. ├─base::unlist(...)
31. └─base::Map(...)
32. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
33. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
34. └─rtables::format_rcell(...)
35. └─formatters::format_value(...)
36. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
⠙ [ FAIL 30 | WARN 0 | SKIP 32 | PASS 60 ] @ analyze_variables
────────────────────────────────────────────────────────────────────────────────
Error ('test-analyze_variables.R:172:3'): a_summary work with healthy input.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:172:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:232:3'): a_summary works with custom input.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:232:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:253:3'): a_summary works with healthy input when compare_with_ref_group = TRUE.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:253:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:293:3'): a_summary works with custom input when compare_with_ref_group = TRUE.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:293:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:310:3'): `analyze_vars` works with healthy input, default `na_rm = TRUE`.
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. └─rtables::build_table(l, df = dta_test) at test-analyze_variables.R:310:3
2. └─rtables::update_ref_indexing(tab)
3. ├─formatters::make_row_df(tt)
4. └─rtables::make_row_df(tt)
5. └─rtables (local) .local(...)
6. ├─formatters::make_row_df(...)
7. └─rtables::make_row_df(...)
8. └─rtables (local) .local(...)
9. ├─formatters::pagdfrow(...)
10. │ └─base::data.frame(...)
11. ├─formatters::nlines(...)
12. └─rtables::nlines(...)
13. ├─base::as.vector(get_formatted_cells(x))
14. ├─rtables::get_formatted_cells(x)
15. └─rtables::get_formatted_cells(x)
16. ├─base::matrix(...)
17. ├─base::unlist(...)
18. └─base::Map(...)
19. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
20. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
21. └─rtables::format_rcell(...)
22. └─formatters::format_value(...)
23. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:325:3'): `analyze_vars` works with healthy input, and control function.
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. └─rtables::build_table(l, df = dta_test) at test-analyze_variables.R:325:3
2. └─rtables::update_ref_indexing(tab)
3. ├─formatters::make_row_df(tt)
4. └─rtables::make_row_df(tt)
5. └─rtables (local) .local(...)
6. ├─formatters::make_row_df(...)
7. └─rtables::make_row_df(...)
8. └─rtables (local) .local(...)
9. ├─formatters::pagdfrow(...)
10. │ └─base::data.frame(...)
11. ├─formatters::nlines(...)
12. └─rtables::nlines(...)
13. ├─base::as.vector(get_formatted_cells(x))
14. ├─rtables::get_formatted_cells(x)
15. └─rtables::get_formatted_cells(x)
16. ├─base::matrix(...)
17. ├─base::unlist(...)
18. └─base::Map(...)
19. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
20. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
21. └─rtables::format_rcell(...)
22. └─formatters::format_value(...)
23. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:336:3'): `analyze_vars` works with healthy input, alternative `na_rm = FALSE`
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. └─rtables::build_table(l, df = dta_test) at test-analyze_variables.R:336:3
2. └─rtables::update_ref_indexing(tab)
3. ├─formatters::make_row_df(tt)
4. └─rtables::make_row_df(tt)
5. └─rtables (local) .local(...)
6. ├─formatters::make_row_df(...)
7. └─rtables::make_row_df(...)
8. └─rtables (local) .local(...)
9. ├─formatters::pagdfrow(...)
10. │ └─base::data.frame(...)
11. ├─formatters::nlines(...)
12. └─rtables::nlines(...)
13. ├─base::as.vector(get_formatted_cells(x))
14. ├─rtables::get_formatted_cells(x)
15. └─rtables::get_formatted_cells(x)
16. ├─base::matrix(...)
17. ├─base::unlist(...)
18. └─base::Map(...)
19. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
20. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
21. └─rtables::format_rcell(...)
22. └─formatters::format_value(...)
23. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:345:3'): `analyze_vars` works with healthy factor input
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─basic_table() %>% analyze_vars(vars = "foo") %>% ... at test-analyze_variables.R:345:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:356:3'): `analyze_vars` works with healthy factor input, alternative `na_rm = FALSE`
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:356:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:380:3'): `analyze_vars` works with factors and different denominators
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─start %>% analyze_vars("RACE", denom = "n") %>% ... at test-analyze_variables.R:380:3
2. └─rtables::build_table(., DM)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:400:3'): analyze_vars works in demographic table example
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(DM) at test-analyze_variables.R:400:3
2. └─rtables::build_table(., DM)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:418:3'): `analyze_vars` works with character input and gives the same result as with factor
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_warning(result <- build_table(l, dta)) at test-analyze_variables.R:418:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─rtables::build_table(l, dta)
8. └─rtables::update_ref_indexing(tab)
9. ├─formatters::make_row_df(tt)
10. └─rtables::make_row_df(tt)
11. └─rtables (local) .local(...)
12. ├─formatters::make_row_df(...)
13. └─rtables::make_row_df(...)
14. └─rtables (local) .local(...)
15. ├─formatters::pagdfrow(...)
16. │ └─base::data.frame(...)
17. ├─formatters::nlines(...)
18. └─rtables::nlines(...)
19. ├─base::as.vector(get_formatted_cells(x))
20. ├─rtables::get_formatted_cells(x)
21. └─rtables::get_formatted_cells(x)
22. ├─base::matrix(...)
23. ├─base::unlist(...)
24. └─base::Map(...)
25. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
26. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
27. └─rtables::format_rcell(...)
28. └─formatters::format_value(...)
29. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:442:3'): `analyze_vars` does not work with sparse character input due to missing statistics
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_silent(build_table(l, dta_factor)) at test-analyze_variables.R:442:3
2. │ └─testthat:::quasi_capture(enquo(object), NULL, evaluate_promise)
3. │ ├─testthat (local) .capture(...)
4. │ │ ├─withr::with_output_sink(...)
5. │ │ │ └─base::force(code)
6. │ │ ├─base::withCallingHandlers(...)
7. │ │ └─base::withVisible(code)
8. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
9. └─rtables::build_table(l, dta_factor)
10. └─rtables::update_ref_indexing(tab)
11. ├─formatters::make_row_df(tt)
12. └─rtables::make_row_df(tt)
13. └─rtables (local) .local(...)
14. ├─formatters::make_row_df(...)
15. └─rtables::make_row_df(...)
16. └─rtables (local) .local(...)
17. ├─formatters::pagdfrow(...)
18. │ └─base::data.frame(...)
19. ├─formatters::nlines(...)
20. └─rtables::nlines(...)
21. ├─base::as.vector(get_formatted_cells(x))
22. ├─rtables::get_formatted_cells(x)
23. └─rtables::get_formatted_cells(x)
24. ├─base::matrix(...)
25. ├─base::unlist(...)
26. └─base::Map(...)
27. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
28. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
29. └─rtables::format_rcell(...)
30. └─formatters::format_value(...)
31. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:450:3'): `analyze_vars` works with logical input
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─basic_table() %>% analyze_vars(vars = "boo") %>% ... at test-analyze_variables.R:450:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:461:3'): `analyze_vars` works with healthy logical input, alternative `na_rm = FALSE`
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:461:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:486:3'): `analyze_vars` works with empty named numeric variables
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:486:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:503:3'): analyze_vars 'na_str' argument works as expected
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:503:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:530:3'): analyze_vars works correctly with auto formats
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dt) at test-analyze_variables.R:530:3
2. └─rtables::build_table(., dt)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:544:3'): analyze_vars works well with additional stat names (.stat_names)
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% as_result_df(make_ard = TRUE) at test-analyze_variables.R:544:3
2. ├─rtables::as_result_df(., make_ard = TRUE)
3. │ └─checkmate::assert_class(tt, "VTableTree")
4. │ └─checkmate::checkClass(x, classes, ordered, null.ok)
5. └─rtables::build_table(., dt)
6. └─rtables::update_ref_indexing(tab)
7. ├─formatters::make_row_df(tt)
8. └─rtables::make_row_df(tt)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:559:3'): analyze_vars works well with additional stat names (.stat_names) and stats (custom fnc)
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dt) at test-analyze_variables.R:559:3
2. └─rtables::build_table(., dt)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:624:3'): analyze_vars keeps the order of mixed custom fnc and defaults
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(tern_ex_adsl) at test-analyze_variables.R:624:3
2. └─rtables::build_table(., tern_ex_adsl)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:662:3'): analyze_vars warnings for geom_verbose work
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-analyze_variables.R:662:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. ├─... %>% build_table(tmp_df)
8. └─rtables::build_table(., tmp_df)
9. └─rtables::update_ref_indexing(tab)
10. ├─formatters::make_row_df(tt)
11. └─rtables::make_row_df(tt)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Maximum number of failures exceeded; quitting.
ℹ Increase this number with (e.g.) `testthat::set_max_fails(Inf)`
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.9.9
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘missing_values.Rmd’ using rmarkdown
Quitting from missing_values.Rmd:42-63 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `match.arg()`:
! 'arg' must be of length 1
---
Backtrace:
▆
1. ├─... %>% build_table(adsl)
2. └─rtables::build_table(., adsl)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'missing_values.Rmd' failed with diagnostics:
'arg' must be of length 1
--- failed re-building ‘missing_values.Rmd’
--- re-building ‘tables.Rmd’ using rmarkdown
Quitting from tables.Rmd:107-121 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `match.arg()`:
! 'arg' must be of length 1
---
Backtrace:
▆
1. ├─... %>% build_table(adsl)
2. └─rtables::build_table(., adsl)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'tables.Rmd' failed with diagnostics:
'arg' must be of length 1
--- failed re-building ‘tables.Rmd’
--- re-building ‘tern.Rmd’ using rmarkdown
Quitting from tern.Rmd:111-118 [unnamed-chunk-5]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `match.arg()`:
! 'arg' must be of length 1
---
Backtrace:
▆
1. └─rtables::build_table(lyt, df = adrs)
2. └─rtables::update_ref_indexing(tab)
3. ├─formatters::make_row_df(tt)
4. └─rtables::make_row_df(tt)
5. └─rtables (local) .local(...)
6. ├─formatters::make_row_df(...)
7. └─rtables::make_row_df(...)
8. └─rtables (local) .local(...)
9. ├─formatters::make_row_df(...)
10. └─rtables::make_row_df(...)
11. └─rtables (local) .local(...)
12. ├─formatters::make_row_df(...)
13. └─rtables::make_row_df(...)
14. └─rtables (local) .local(...)
15. ├─formatters::pagdfrow(...)
16. │ └─base::data.frame(...)
17. ├─formatters::nlines(...)
18. └─rtables::nlines(...)
19. ├─base::as.vector(get_formatted_cells(x))
20. ├─rtables::get_formatted_cells(x)
21. └─rtables::get_formatted_cells(x)
22. ├─base::matrix(...)
23. ├─base::unlist(...)
24. └─base::Map(...)
25. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
26. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
27. └─rtables::format_rcell(...)
28. └─formatters::format_value(...)
29. └─base::match.arg(round_type)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'tern.Rmd' failed with diagnostics:
'arg' must be of length 1
--- failed re-building ‘tern.Rmd’
--- re-building ‘tern_formats.Rmd’ using rmarkdown
Quitting from tern_formats.Rmd:55-76 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `match.arg()`:
! 'arg' must be of length 1
---
Backtrace:
▆
1. ├─... %>% build_table(df2)
2. └─rtables::build_table(., df2)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'tern_formats.Rmd' failed with diagnostics:
'arg' must be of length 1
--- failed re-building ‘tern_formats.Rmd’
--- re-building ‘tern_functions_guide.Rmd’ using rmarkdown
Quitting from tern_functions_guide.Rmd:64-86 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `match.arg()`:
! 'arg' must be of length 1
---
Backtrace:
▆
1. ├─... %>% print()
2. ├─base::print(.)
3. └─rtables::build_table(., dta_test)
4. └─rtables::update_ref_indexing(tab)
5. ├─formatters::make_row_df(tt)
6. └─rtables::make_row_df(tt)
7. └─rtables (local) .local(...)
8. ├─formatters::make_row_df(...)
9. └─rtables::make_row_df(...)
10. └─rtables (local) .local(...)
11. ├─formatters::make_row_df(...)
12. └─rtables::make_row_df(...)
13. └─rtables (local) .local(...)
14. ├─formatters::make_row_df(...)
15. └─rtables::make_row_df(...)
16. └─rtables (local) .local(...)
17. ├─formatters::pagdfrow(...)
18. │ └─base::data.frame(...)
19. ├─formatters::nlines(...)
20. └─rtables::nlines(...)
21. ├─base::as.vector(get_formatted_cells(x))
22. ├─rtables::get_formatted_cells(x)
23. └─rtables::get_formatted_cells(x)
24. ├─base::matrix(...)
25. ├─base::unlist(...)
26. └─base::Map(...)
27. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
28. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
29. └─rtables::format_rcell(...)
30. └─formatters::format_value(...)
31. └─base::match.arg(round_type)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'tern_functions_guide.Rmd' failed with diagnostics:
'arg' must be of length 1
--- failed re-building ‘tern_functions_guide.Rmd’
SUMMARY: processing the following files failed:
‘missing_values.Rmd’ ‘tables.Rmd’ ‘tern.Rmd’ ‘tern_formats.Rmd’
‘tern_functions_guide.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.9.9
Check: tests
Result: ERROR
Running ‘testthat.R’ [36s/39s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> pkg_name <- "tern"
> library(testthat)
> test_check(pkg_name, reporter = ParallelProgressReporter$new())
Loading required package: tern
Loading required package: rtables
Loading required package: formatters
Attaching package: 'formatters'
The following object is masked from 'package:base':
%||%
Loading required package: magrittr
Attaching package: 'magrittr'
The following objects are masked from 'package:testthat':
equals, is_less_than, not
Attaching package: 'rtables'
The following object is masked from 'package:utils':
str
Registered S3 method overwritten by 'tern':
method from
tidy.glm broom
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
✔ | F W S OK | Context
⠋ [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ] Starting up...
✖ | 3 4 4 | abnormal [1.7s]
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal.R:98:3'): count_abnormal works with default arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df) at test-abnormal.R:98:3
2. └─rtables::build_table(., df)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-abnormal.R:122:3'): count_abnormal works with custom arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df2) at test-abnormal.R:122:3
2. └─rtables::build_table(., df2)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-abnormal.R:154:3'): count_abnormal works with default arguments and visit
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df) at test-abnormal.R:154:3
2. └─rtables::build_table(., df)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 2 3 8 | abnormal_by_baseline
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_by_baseline.R:89:3'): count_abnormal_by_baseline works with default arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df) at test-abnormal_by_baseline.R:89:3
2. └─rtables::build_table(., df)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
Error ('test-abnormal_by_baseline.R:103:3'): count_abnormal_by_baseline works with custom arguments
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df2) at test-abnormal_by_baseline.R:103:3
2. └─rtables::build_table(., df2)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 1 2 3 | abnormal_by_marked [11.2s]
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_by_marked.R:242:3'): count_abnormal_by_marked works as expected
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df = adlb_f) at test-abnormal_by_marked.R:242:3
2. └─rtables::build_table(., df = adlb_f)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 1 1 2 | abnormal_by_worst_grade
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_by_worst_grade.R:60:3'): count_abnormal_by_worst_grade works as expected
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df = adlb_f) at test-abnormal_by_worst_grade.R:60:3
2. └─rtables::build_table(., df = adlb_f)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::make_row_df(...)
17. └─rtables::make_row_df(...)
18. └─rtables (local) .local(...)
19. ├─formatters::make_row_df(...)
20. └─rtables::make_row_df(...)
21. └─rtables (local) .local(...)
22. ├─formatters::pagdfrow(...)
23. │ └─base::data.frame(...)
24. ├─formatters::nlines(...)
25. └─rtables::nlines(...)
26. ├─base::as.vector(get_formatted_cells(x))
27. ├─rtables::get_formatted_cells(x)
28. └─rtables::get_formatted_cells(x)
29. ├─base::matrix(...)
30. ├─base::unlist(...)
31. └─base::Map(...)
32. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
33. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
34. └─rtables::format_rcell(...)
35. └─formatters::format_value(...)
36. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
✖ | 1 7 11 | abnormal_lab_worsen_by_baseline [2.0s]
────────────────────────────────────────────────────────────────────────────────
Error ('test-abnormal_lab_worsen_by_baseline.R:195:3'): count_abnormal_lab_worsen_by_baseline
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(df = df, alt_counts_df = tern_ex_adsl) at test-abnormal_lab_worsen_by_baseline.R:195:3
2. └─rtables::build_table(., df = df, alt_counts_df = tern_ex_adsl)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::make_row_df(...)
17. └─rtables::make_row_df(...)
18. └─rtables (local) .local(...)
19. ├─formatters::make_row_df(...)
20. └─rtables::make_row_df(...)
21. └─rtables (local) .local(...)
22. ├─formatters::pagdfrow(...)
23. │ └─base::data.frame(...)
24. ├─formatters::nlines(...)
25. └─rtables::nlines(...)
26. ├─base::as.vector(get_formatted_cells(x))
27. ├─rtables::get_formatted_cells(x)
28. └─rtables::get_formatted_cells(x)
29. ├─base::matrix(...)
30. ├─base::unlist(...)
31. └─base::Map(...)
32. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
33. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
34. └─rtables::format_rcell(...)
35. └─formatters::format_value(...)
36. └─base::match.arg(round_type)
────────────────────────────────────────────────────────────────────────────────
⠙ [ FAIL 30 | WARN 0 | SKIP 32 | PASS 60 ] @ analyze_variables
────────────────────────────────────────────────────────────────────────────────
Error ('test-analyze_variables.R:172:3'): a_summary work with healthy input.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:172:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:232:3'): a_summary works with custom input.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:232:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:253:3'): a_summary works with healthy input when compare_with_ref_group = TRUE.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:253:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:293:3'): a_summary works with custom input when compare_with_ref_group = TRUE.
Error in `h(simpleError(msg, call))`: error in evaluating the argument 'x' in selecting a method for function 'print': 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_snapshot(res) at test-analyze_variables.R:293:3
2. │ └─testthat:::expect_snapshot_(...)
3. │ ├─testthat:::with_is_snapshotting(...)
4. │ └─testthat:::verify_exec(quo_get_expr(x), quo_get_env(x), replay)
5. │ └─evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)
6. │ ├─base::withRestarts(...)
7. │ │ └─base (local) withRestartList(expr, restarts)
8. │ │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
9. │ │ │ └─base (local) doWithOneRestart(return(expr), restart)
10. │ │ └─base (local) withRestartList(expr, restarts[-nr])
11. │ │ └─base (local) withOneRestart(expr, restarts[[1L]])
12. │ │ └─base (local) doWithOneRestart(return(expr), restart)
13. │ ├─evaluate:::with_handlers(...)
14. │ │ ├─base::eval(call)
15. │ │ │ └─base::eval(call)
16. │ │ └─base::withCallingHandlers(...)
17. │ └─watcher$print_value(ev$value, ev$visible, envir)
18. │ ├─base::withVisible(handle_value(handler, value, visible, envir))
19. │ └─evaluate:::handle_value(handler, value, visible, envir)
20. │ ├─handler$value(value)
21. │ └─testthat:::testthat_print.default(value)
22. │ ├─base::print(x)
23. │ └─rtables:::print.RowsVerticalSection(x)
24. │ ├─base::print(...)
25. │ ├─base::data.frame(...)
26. │ └─base::vapply(x, format_rcell, character(1))
27. │ └─rtables (local) FUN(X[[i]], ...)
28. │ └─formatters::format_value(...)
29. │ └─base::match.arg(round_type)
30. │ └─base::stop(gettextf("'%s' must be of length 1", "arg"), domain = NA)
31. └─base::.handleSimpleError(...)
32. └─base (local) h(simpleError(msg, call))
Error ('test-analyze_variables.R:310:3'): `analyze_vars` works with healthy input, default `na_rm = TRUE`.
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. └─rtables::build_table(l, df = dta_test) at test-analyze_variables.R:310:3
2. └─rtables::update_ref_indexing(tab)
3. ├─formatters::make_row_df(tt)
4. └─rtables::make_row_df(tt)
5. └─rtables (local) .local(...)
6. ├─formatters::make_row_df(...)
7. └─rtables::make_row_df(...)
8. └─rtables (local) .local(...)
9. ├─formatters::pagdfrow(...)
10. │ └─base::data.frame(...)
11. ├─formatters::nlines(...)
12. └─rtables::nlines(...)
13. ├─base::as.vector(get_formatted_cells(x))
14. ├─rtables::get_formatted_cells(x)
15. └─rtables::get_formatted_cells(x)
16. ├─base::matrix(...)
17. ├─base::unlist(...)
18. └─base::Map(...)
19. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
20. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
21. └─rtables::format_rcell(...)
22. └─formatters::format_value(...)
23. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:325:3'): `analyze_vars` works with healthy input, and control function.
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. └─rtables::build_table(l, df = dta_test) at test-analyze_variables.R:325:3
2. └─rtables::update_ref_indexing(tab)
3. ├─formatters::make_row_df(tt)
4. └─rtables::make_row_df(tt)
5. └─rtables (local) .local(...)
6. ├─formatters::make_row_df(...)
7. └─rtables::make_row_df(...)
8. └─rtables (local) .local(...)
9. ├─formatters::pagdfrow(...)
10. │ └─base::data.frame(...)
11. ├─formatters::nlines(...)
12. └─rtables::nlines(...)
13. ├─base::as.vector(get_formatted_cells(x))
14. ├─rtables::get_formatted_cells(x)
15. └─rtables::get_formatted_cells(x)
16. ├─base::matrix(...)
17. ├─base::unlist(...)
18. └─base::Map(...)
19. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
20. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
21. └─rtables::format_rcell(...)
22. └─formatters::format_value(...)
23. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:336:3'): `analyze_vars` works with healthy input, alternative `na_rm = FALSE`
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. └─rtables::build_table(l, df = dta_test) at test-analyze_variables.R:336:3
2. └─rtables::update_ref_indexing(tab)
3. ├─formatters::make_row_df(tt)
4. └─rtables::make_row_df(tt)
5. └─rtables (local) .local(...)
6. ├─formatters::make_row_df(...)
7. └─rtables::make_row_df(...)
8. └─rtables (local) .local(...)
9. ├─formatters::pagdfrow(...)
10. │ └─base::data.frame(...)
11. ├─formatters::nlines(...)
12. └─rtables::nlines(...)
13. ├─base::as.vector(get_formatted_cells(x))
14. ├─rtables::get_formatted_cells(x)
15. └─rtables::get_formatted_cells(x)
16. ├─base::matrix(...)
17. ├─base::unlist(...)
18. └─base::Map(...)
19. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
20. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
21. └─rtables::format_rcell(...)
22. └─formatters::format_value(...)
23. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:345:3'): `analyze_vars` works with healthy factor input
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─basic_table() %>% analyze_vars(vars = "foo") %>% ... at test-analyze_variables.R:345:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:356:3'): `analyze_vars` works with healthy factor input, alternative `na_rm = FALSE`
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:356:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:380:3'): `analyze_vars` works with factors and different denominators
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─start %>% analyze_vars("RACE", denom = "n") %>% ... at test-analyze_variables.R:380:3
2. └─rtables::build_table(., DM)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:400:3'): analyze_vars works in demographic table example
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(DM) at test-analyze_variables.R:400:3
2. └─rtables::build_table(., DM)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:418:3'): `analyze_vars` works with character input and gives the same result as with factor
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_warning(result <- build_table(l, dta)) at test-analyze_variables.R:418:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─rtables::build_table(l, dta)
8. └─rtables::update_ref_indexing(tab)
9. ├─formatters::make_row_df(tt)
10. └─rtables::make_row_df(tt)
11. └─rtables (local) .local(...)
12. ├─formatters::make_row_df(...)
13. └─rtables::make_row_df(...)
14. └─rtables (local) .local(...)
15. ├─formatters::pagdfrow(...)
16. │ └─base::data.frame(...)
17. ├─formatters::nlines(...)
18. └─rtables::nlines(...)
19. ├─base::as.vector(get_formatted_cells(x))
20. ├─rtables::get_formatted_cells(x)
21. └─rtables::get_formatted_cells(x)
22. ├─base::matrix(...)
23. ├─base::unlist(...)
24. └─base::Map(...)
25. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
26. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
27. └─rtables::format_rcell(...)
28. └─formatters::format_value(...)
29. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:442:3'): `analyze_vars` does not work with sparse character input due to missing statistics
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_silent(build_table(l, dta_factor)) at test-analyze_variables.R:442:3
2. │ └─testthat:::quasi_capture(enquo(object), NULL, evaluate_promise)
3. │ ├─testthat (local) .capture(...)
4. │ │ ├─withr::with_output_sink(...)
5. │ │ │ └─base::force(code)
6. │ │ ├─base::withCallingHandlers(...)
7. │ │ └─base::withVisible(code)
8. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
9. └─rtables::build_table(l, dta_factor)
10. └─rtables::update_ref_indexing(tab)
11. ├─formatters::make_row_df(tt)
12. └─rtables::make_row_df(tt)
13. └─rtables (local) .local(...)
14. ├─formatters::make_row_df(...)
15. └─rtables::make_row_df(...)
16. └─rtables (local) .local(...)
17. ├─formatters::pagdfrow(...)
18. │ └─base::data.frame(...)
19. ├─formatters::nlines(...)
20. └─rtables::nlines(...)
21. ├─base::as.vector(get_formatted_cells(x))
22. ├─rtables::get_formatted_cells(x)
23. └─rtables::get_formatted_cells(x)
24. ├─base::matrix(...)
25. ├─base::unlist(...)
26. └─base::Map(...)
27. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
28. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
29. └─rtables::format_rcell(...)
30. └─formatters::format_value(...)
31. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:450:3'): `analyze_vars` works with logical input
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─basic_table() %>% analyze_vars(vars = "boo") %>% ... at test-analyze_variables.R:450:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:461:3'): `analyze_vars` works with healthy logical input, alternative `na_rm = FALSE`
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:461:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:486:3'): `analyze_vars` works with empty named numeric variables
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:486:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:503:3'): analyze_vars 'na_str' argument works as expected
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dta) at test-analyze_variables.R:503:3
2. └─rtables::build_table(., dta)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:530:3'): analyze_vars works correctly with auto formats
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dt) at test-analyze_variables.R:530:3
2. └─rtables::build_table(., dt)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:544:3'): analyze_vars works well with additional stat names (.stat_names)
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% as_result_df(make_ard = TRUE) at test-analyze_variables.R:544:3
2. ├─rtables::as_result_df(., make_ard = TRUE)
3. │ └─checkmate::assert_class(tt, "VTableTree")
4. │ └─checkmate::checkClass(x, classes, ordered, null.ok)
5. └─rtables::build_table(., dt)
6. └─rtables::update_ref_indexing(tab)
7. ├─formatters::make_row_df(tt)
8. └─rtables::make_row_df(tt)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:559:3'): analyze_vars works well with additional stat names (.stat_names) and stats (custom fnc)
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(dt) at test-analyze_variables.R:559:3
2. └─rtables::build_table(., dt)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::make_row_df(...)
11. └─rtables::make_row_df(...)
12. └─rtables (local) .local(...)
13. ├─formatters::pagdfrow(...)
14. │ └─base::data.frame(...)
15. ├─formatters::nlines(...)
16. └─rtables::nlines(...)
17. ├─base::as.vector(get_formatted_cells(x))
18. ├─rtables::get_formatted_cells(x)
19. └─rtables::get_formatted_cells(x)
20. ├─base::matrix(...)
21. ├─base::unlist(...)
22. └─base::Map(...)
23. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
24. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
25. └─rtables::format_rcell(...)
26. └─formatters::format_value(...)
27. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:624:3'): analyze_vars keeps the order of mixed custom fnc and defaults
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─... %>% build_table(tern_ex_adsl) at test-analyze_variables.R:624:3
2. └─rtables::build_table(., tern_ex_adsl)
3. └─rtables::update_ref_indexing(tab)
4. ├─formatters::make_row_df(tt)
5. └─rtables::make_row_df(tt)
6. └─rtables (local) .local(...)
7. ├─formatters::make_row_df(...)
8. └─rtables::make_row_df(...)
9. └─rtables (local) .local(...)
10. ├─formatters::pagdfrow(...)
11. │ └─base::data.frame(...)
12. ├─formatters::nlines(...)
13. └─rtables::nlines(...)
14. ├─base::as.vector(get_formatted_cells(x))
15. ├─rtables::get_formatted_cells(x)
16. └─rtables::get_formatted_cells(x)
17. ├─base::matrix(...)
18. ├─base::unlist(...)
19. └─base::Map(...)
20. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
21. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
22. └─rtables::format_rcell(...)
23. └─formatters::format_value(...)
24. └─base::match.arg(round_type)
Error ('test-analyze_variables.R:662:3'): analyze_vars warnings for geom_verbose work
Error in `match.arg(round_type)`: 'arg' must be of length 1
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-analyze_variables.R:662:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. ├─... %>% build_table(tmp_df)
8. └─rtables::build_table(., tmp_df)
9. └─rtables::update_ref_indexing(tab)
10. ├─formatters::make_row_df(tt)
11. └─rtables::make_row_df(tt)
12. └─rtables (local) .local(...)
13. ├─formatters::make_row_df(...)
14. └─rtables::make_row_df(...)
15. └─rtables (local) .local(...)
16. ├─formatters::pagdfrow(...)
17. │ └─base::data.frame(...)
18. ├─formatters::nlines(...)
19. └─rtables::nlines(...)
20. ├─base::as.vector(get_formatted_cells(x))
21. ├─rtables::get_formatted_cells(x)
22. └─rtables::get_formatted_cells(x)
23. ├─base::matrix(...)
24. ├─base::unlist(...)
25. └─base::Map(...)
26. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
27. └─rtables (local) `<fn>`(val = dots[[1L]][[1L]], spn = dots[[2L]][[1L]], shelli = dots[[3L]][[1L]])
28. └─rtables::format_rcell(...)
29. └─formatters::format_value(...)
30. └─base::match.arg(round_type)
Maximum number of failures exceeded; quitting.
ℹ Increase this number with (e.g.) `testthat::set_max_fails(Inf)`
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.9.9
Check: installed package size
Result: NOTE
installed size is 9.2Mb
sub-directories of 1Mb or more:
doc 5.3Mb
help 2.7Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64