Last updated on 2025-09-06 21:50:44 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 3.6.3 | 7.87 | 116.80 | 124.67 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 3.6.3 | 4.90 | 102.40 | 107.30 | OK | |
| r-devel-linux-x86_64-fedora-clang | 3.6.3 | 228.73 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 3.6.3 | 236.24 | OK | |||
| r-devel-windows-x86_64 | 3.6.3 | 9.00 | 131.00 | 140.00 | ERROR | |
| r-patched-linux-x86_64 | 3.6.3 | 8.25 | 135.30 | 143.55 | OK | |
| r-release-linux-x86_64 | 3.6.3 | 7.35 | 133.33 | 140.68 | OK | |
| r-release-macos-arm64 | 3.6.3 | 85.00 | OK | |||
| r-release-macos-x86_64 | 3.6.3 | 145.00 | OK | |||
| r-release-windows-x86_64 | 3.6.3 | 9.00 | 160.00 | 169.00 | OK | |
| r-oldrel-macos-arm64 | 3.6.3 | 73.00 | OK | |||
| r-oldrel-macos-x86_64 | 3.6.3 | 117.00 | OK | |||
| r-oldrel-windows-x86_64 | 3.6.3 | 11.00 | 190.00 | 201.00 | OK |
Version: 3.6.3
Check: examples
Result: ERROR
Running examples in ‘arsenal-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: modelsum
> ### Title: Fit models over each of a set of independent variables with a
> ### response variable
> ### Aliases: modelsum
>
> ### ** Examples
>
>
> data(mockstudy)
>
> tab1 <- modelsum(bmi ~ sex + age, data = mockstudy)
Error in ll(object) : could not find function "ll"
Calls: modelsum ... tibble_quos -> eval_tidy -> <Anonymous> -> AIC.default
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 3.6.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [30s/40s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(arsenal)
>
> test_check("arsenal")
[ FAIL 33 | WARN 0 | SKIP 11 | PASS 413 ]
══ Skipped tests (11) ══════════════════════════════════════════════════════════
• On CRAN (11): 'test_write2.R:31:3', 'test_write2.R:37:3',
'test_write2.R:45:3', 'test_write2.R:50:3', 'test_write2.R:104:3',
'test_write2.R:108:3', 'test_write2.R:112:3', 'test_write2.R:123:3',
'test_write2.R:128:3', 'test_write2.R:134:3', 'test_write2.R:189:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_keep.labels.R:77:3'): Keep labels in modelsum ──────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_keep.labels.R:77:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:8:3'): A three-LHS modelsum call ────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:8:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:19:3'): A modelsum call with strata ─────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:19:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:48:3'): strata levels are maintained ────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:48:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::set_labels(...)
9. ├─arsenal::modelsum(...)
10. │ └─arsenal:::modelsum_guts(...)
11. │ ├─broom::glance(fit)
12. │ └─broom:::glance.lm(fit)
13. │ ├─base::with(...)
14. │ └─base::with.default(...)
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─tibble::tibble(...)
18. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
19. │ └─rlang::eval_tidy(xs[[j]], mask)
20. ├─stats::AIC(x)
21. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:71:3'): Multiple adjustments work (#240) ────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:71:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:190:3'): Reordering variables and subsetting ────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:190:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:222:3'): Merging modelsum objects ───────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:222:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:253:3'): Changing labels ────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:253:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:391:3'): 02/23/2018: wrapping long labels (#59) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:391:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::print(...)
8. ├─base::summary(...)
9. ├─arsenal::modelsum(...)
10. │ └─arsenal:::modelsum_guts(...)
11. │ ├─broom::glance(fit)
12. │ └─broom:::glance.lm(fit)
13. │ ├─base::with(...)
14. │ └─base::with.default(...)
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─tibble::tibble(...)
18. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
19. │ └─rlang::eval_tidy(xs[[j]], mask)
20. ├─stats::AIC(x)
21. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:13:3'): A basic modelsum call--no labels, no missings ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:13:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(Age ~ Sex + time, data = mdat), text = TRUE)
8. ├─arsenal::modelsum(Age ~ Sex + time, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:26:3'): A basic modelsum tableby call--labels, no missings ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:26:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(Age ~ Sex + trt, data = mdat), text = TRUE)
8. ├─arsenal::modelsum(Age ~ Sex + trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:39:3'): A basic modelsum call--adding adjustment ────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:39:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + time, adjust = ~trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:54:3'): A basic modelsum call--suppressing intercept and/or adjustment vars ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:54:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + time, adjust = ~trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:90:3'): Reordering variables ────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:90:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + Group + time, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:170:3'): 'weights=' works ───────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:170:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(Age ~ Sex, data = mdat, weights = weights))
8. ├─arsenal::modelsum(Age ~ Sex, data = mdat, weights = weights)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:181:3'): interactions work ──────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:181:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(age ~ bmi, adjust = ~sex * arm, data = mockstudy))
8. ├─arsenal::modelsum(age ~ bmi, adjust = ~sex * arm, data = mockstudy)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:286:5'): negbin works ───────────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:286:5
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─base::suppressWarnings(broom::glance(fit))
11. │ │ └─base::withCallingHandlers(...)
12. │ ├─broom::glance(fit)
13. │ └─broom:::glance.negbin(fit)
14. │ └─tibble::tibble(...)
15. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
16. │ └─rlang::eval_tidy(xs[[j]], mask)
17. ├─stats::AIC(x)
18. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:312:3'): 01/26/2017: Brendan Broderick's Bold Text Wrapping Problem ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:312:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Failure ('test_modelsum.R:330:3'): 02/07/2017: Ryan Lennon's R Markdown spacing problem. Also 02/14/2018 (#66) ──
`capture.kable(...)` threw an error.
Message: could not find function "ll"
Class: simpleError/error/condition
Backtrace:
▆
1. ├─testthat::expect_error(...) at test_modelsum.R:330:3
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. ├─arsenal:::capture.kable(...)
7. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
8. │ └─base::withVisible(...elt(i))
9. ├─base::summary(modelsum(Age ~ Sex + time, data = mdat), text = TRUE)
10. ├─arsenal::modelsum(Age ~ Sex + time, data = mdat)
11. │ └─arsenal:::modelsum_guts(...)
12. │ ├─broom::glance(fit)
13. │ └─broom:::glance.lm(fit)
14. │ ├─base::with(...)
15. │ └─base::with.default(...)
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
18. │ └─tibble::tibble(...)
19. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
20. │ └─rlang::eval_tidy(xs[[j]], mask)
21. ├─stats::AIC(x)
22. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:368:3'): 04/12/2017: ... vs modelsum.control ────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:368:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:405:3'): 07/27/2017: Too many adjustment vars in as.data.frame.modelsum (#12) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_equal(...) at test_modelsum.R:405:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─base::nrow(...)
5. ├─base::as.data.frame(...)
6. ├─arsenal::modelsum(y ~ x1, adjust = ~x7 + x2 + x3 + x5 + x8, data = df)
7. │ └─arsenal:::modelsum_guts(...)
8. │ ├─broom::glance(fit)
9. │ └─broom:::glance.lm(fit)
10. │ ├─base::with(...)
11. │ └─base::with.default(...)
12. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
13. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
14. │ └─tibble::tibble(...)
15. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
16. │ └─rlang::eval_tidy(xs[[j]], mask)
17. ├─stats::AIC(x)
18. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:411:3'): 07/27/2017: modelsum labels (#13) ──────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:411:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(bmi ~ age, adjust = ~sex, data = mockstudy)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:435:3'): 12/23/2017: non-syntactic names (#44, #45) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:435:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(summary(modelsum(y ~ x1x, data = dat)))
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(y ~ x1x, data = dat))
8. ├─arsenal::modelsum(y ~ x1x, data = dat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:456:3'): 01/05/2018: leading/trailing whitespace (#48) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:456:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(age ~ arm, data = set_labels(mockstudy, list(arm = " Arm ")))
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:484:3'): 02/23/2018: wrapping long labels (#59) ─────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:484:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::print(...)
8. ├─base::summary(...)
9. ├─arsenal::modelsum(...)
10. │ └─arsenal:::modelsum_guts(...)
11. │ ├─broom::glance(fit)
12. │ └─broom:::glance.lm(fit)
13. │ ├─base::with(...)
14. │ └─base::with.default(...)
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─tibble::tibble(...)
18. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
19. │ └─rlang::eval_tidy(xs[[j]], mask)
20. ├─stats::AIC(x)
21. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:513:3'): 05/31/2018: similar column names (#98) ─────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:513:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(y ~ b, adjust = ~a + aa, data = dat))
8. ├─arsenal::modelsum(y ~ b, adjust = ~a + aa, data = dat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:533:3'): 05/31/2018: similar column names (#100) ────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:533:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:547:3'): 06/19/2018: term.name (#109) ───────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:547:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + time, adjust = ~trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:564:3'): 08/24/2018: latex (#123) ───────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:564:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─utils::capture.output(...)
5. │ └─base::withVisible(...elt(i))
6. ├─base::summary(...)
7. ├─arsenal::modelsum(Age ~ Sex, adjust = ~trt, data = mdat)
8. │ └─arsenal:::modelsum_guts(...)
9. │ ├─broom::glance(fit)
10. │ └─broom:::glance.lm(fit)
11. │ ├─base::with(...)
12. │ └─base::with.default(...)
13. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─tibble::tibble(...)
16. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
17. │ └─rlang::eval_tidy(xs[[j]], mask)
18. ├─stats::AIC(x)
19. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:587:3'): 09/05/2018: correctly label contrasts for ordinal variables (#133) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:587:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:624:3'): 08/07/2019: p.value.lrt (#238) ─────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:624:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at tests/testthat/helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:650:3'): statistic.F works (#262) ───────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_modelsum.R:650:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_write2.R:57:3'): write2.list (summary objects) -> PDF ──────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─base::summary(modelsum(age ~ sex, data = mockstudy), title = "A Title for modelsum") at test_write2.R:57:3
2. ├─arsenal::modelsum(age ~ sex, data = mockstudy)
3. │ └─arsenal:::modelsum_guts(...)
4. │ ├─broom::glance(fit)
5. │ └─broom:::glance.lm(fit)
6. │ ├─base::with(...)
7. │ └─base::with.default(...)
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
10. │ └─tibble::tibble(...)
11. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
12. │ └─rlang::eval_tidy(xs[[j]], mask)
13. ├─stats::AIC(x)
14. └─stats:::AIC.default(x)
[ FAIL 33 | WARN 0 | SKIP 11 | PASS 413 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 3.6.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘comparedf.Rmd’ using rmarkdown
--- finished re-building ‘comparedf.Rmd’
--- re-building ‘freqlist.Rmd’ using rmarkdown
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-1'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'loading.data'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'console.output'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-2'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-3'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-4'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-5'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-6'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-7'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-8'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'labelTranslations'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'sparse'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'na.options'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'freq.counts'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-9'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'changelabs'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-10'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-11'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-12'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-13'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-14'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-15'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-16'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-17'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
--- finished re-building ‘freqlist.Rmd’
--- re-building ‘labels.Rmd’ using rmarkdown
Quitting from labels.Rmd:42-49 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ll()`:
! could not find function "ll"
---
Backtrace:
▆
1. ├─base::summary(...)
2. ├─arsenal::modelsum(bmi ~ age, adjust = ~sex, data = mockstudy)
3. │ └─arsenal:::modelsum_guts(...)
4. │ ├─broom::glance(fit)
5. │ └─broom:::glance.lm(fit)
6. │ ├─base::with(...)
7. │ └─base::with.default(...)
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
10. │ └─tibble::tibble(...)
11. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
12. │ └─rlang::eval_tidy(xs[[j]], mask)
13. ├─stats::AIC(x)
14. └─stats:::AIC.default(x)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'labels.Rmd' failed with diagnostics:
could not find function "ll"
--- failed re-building ‘labels.Rmd’
--- re-building ‘modelsum.Rmd’ using rmarkdown
Quitting from modelsum.Rmd:63-65 [simple1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ll()`:
! could not find function "ll"
---
Backtrace:
▆
1. ├─arsenal::modelsum(bmi ~ sex + age, data = mockstudy)
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'modelsum.Rmd' failed with diagnostics:
could not find function "ll"
--- failed re-building ‘modelsum.Rmd’
--- re-building ‘paired.Rmd’ using rmarkdown
--- finished re-building ‘paired.Rmd’
--- re-building ‘tableby.Rmd’ using rmarkdown
--- finished re-building ‘tableby.Rmd’
--- re-building ‘write2.Rmd’ using rmarkdown
--- finished re-building ‘write2.Rmd’
SUMMARY: processing the following files failed:
‘labels.Rmd’ ‘modelsum.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 3.6.3
Check: examples
Result: ERROR
Running examples in 'arsenal-Ex.R' failed
The error most likely occurred in:
> ### Name: modelsum
> ### Title: Fit models over each of a set of independent variables with a
> ### response variable
> ### Aliases: modelsum
>
> ### ** Examples
>
>
> data(mockstudy)
>
> tab1 <- modelsum(bmi ~ sex + age, data = mockstudy)
Error in ll(object) : could not find function "ll"
Calls: modelsum ... tibble_quos -> eval_tidy -> <Anonymous> -> AIC.default
Execution halted
Flavor: r-devel-windows-x86_64
Version: 3.6.3
Check: tests
Result: ERROR
Running 'testthat.R' [28s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(arsenal)
>
> test_check("arsenal")
[ FAIL 33 | WARN 0 | SKIP 11 | PASS 413 ]
══ Skipped tests (11) ══════════════════════════════════════════════════════════
• On CRAN (11): 'test_write2.R:31:3', 'test_write2.R:37:3',
'test_write2.R:45:3', 'test_write2.R:50:3', 'test_write2.R:104:3',
'test_write2.R:108:3', 'test_write2.R:112:3', 'test_write2.R:123:3',
'test_write2.R:128:3', 'test_write2.R:134:3', 'test_write2.R:189:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_keep.labels.R:77:3'): Keep labels in modelsum ──────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_keep.labels.R:77:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:8:3'): A three-LHS modelsum call ────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:8:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:19:3'): A modelsum call with strata ─────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:19:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:48:3'): strata levels are maintained ────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:48:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::set_labels(...)
9. ├─arsenal::modelsum(...)
10. │ └─arsenal:::modelsum_guts(...)
11. │ ├─broom::glance(fit)
12. │ └─broom:::glance.lm(fit)
13. │ ├─base::with(...)
14. │ └─base::with.default(...)
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─tibble::tibble(...)
18. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
19. │ └─rlang::eval_tidy(xs[[j]], mask)
20. ├─stats::AIC(x)
21. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:71:3'): Multiple adjustments work (#240) ────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:71:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:190:3'): Reordering variables and subsetting ────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:190:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:222:3'): Merging modelsum objects ───────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:222:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:253:3'): Changing labels ────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_lhs_modelsum.R:253:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_lhs_modelsum.R:391:3'): 02/23/2018: wrapping long labels (#59) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_lhs_modelsum.R:391:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::print(...)
8. ├─base::summary(...)
9. ├─arsenal::modelsum(...)
10. │ └─arsenal:::modelsum_guts(...)
11. │ ├─broom::glance(fit)
12. │ └─broom:::glance.lm(fit)
13. │ ├─base::with(...)
14. │ └─base::with.default(...)
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─tibble::tibble(...)
18. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
19. │ └─rlang::eval_tidy(xs[[j]], mask)
20. ├─stats::AIC(x)
21. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:13:3'): A basic modelsum call--no labels, no missings ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:13:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(Age ~ Sex + time, data = mdat), text = TRUE)
8. ├─arsenal::modelsum(Age ~ Sex + time, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:26:3'): A basic modelsum tableby call--labels, no missings ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:26:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(Age ~ Sex + trt, data = mdat), text = TRUE)
8. ├─arsenal::modelsum(Age ~ Sex + trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:39:3'): A basic modelsum call--adding adjustment ────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:39:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + time, adjust = ~trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:54:3'): A basic modelsum call--suppressing intercept and/or adjustment vars ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:54:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + time, adjust = ~trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:90:3'): Reordering variables ────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:90:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + Group + time, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:170:3'): 'weights=' works ───────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:170:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(Age ~ Sex, data = mdat, weights = weights))
8. ├─arsenal::modelsum(Age ~ Sex, data = mdat, weights = weights)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:181:3'): interactions work ──────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:181:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(age ~ bmi, adjust = ~sex * arm, data = mockstudy))
8. ├─arsenal::modelsum(age ~ bmi, adjust = ~sex * arm, data = mockstudy)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:286:5'): negbin works ───────────────────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:286:5
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─base::suppressWarnings(broom::glance(fit))
11. │ │ └─base::withCallingHandlers(...)
12. │ ├─broom::glance(fit)
13. │ └─broom:::glance.negbin(fit)
14. │ └─tibble::tibble(...)
15. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
16. │ └─rlang::eval_tidy(xs[[j]], mask)
17. ├─stats::AIC(x)
18. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:312:3'): 01/26/2017: Brendan Broderick's Bold Text Wrapping Problem ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:312:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Failure ('test_modelsum.R:330:3'): 02/07/2017: Ryan Lennon's R Markdown spacing problem. Also 02/14/2018 (#66) ──
`capture.kable(...)` threw an error.
Message: could not find function "ll"
Class: simpleError/error/condition
Backtrace:
▆
1. ├─testthat::expect_error(...) at test_modelsum.R:330:3
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. ├─arsenal:::capture.kable(...)
7. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
8. │ └─base::withVisible(...elt(i))
9. ├─base::summary(modelsum(Age ~ Sex + time, data = mdat), text = TRUE)
10. ├─arsenal::modelsum(Age ~ Sex + time, data = mdat)
11. │ └─arsenal:::modelsum_guts(...)
12. │ ├─broom::glance(fit)
13. │ └─broom:::glance.lm(fit)
14. │ ├─base::with(...)
15. │ └─base::with.default(...)
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
18. │ └─tibble::tibble(...)
19. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
20. │ └─rlang::eval_tidy(xs[[j]], mask)
21. ├─stats::AIC(x)
22. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:368:3'): 04/12/2017: ... vs modelsum.control ────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:368:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:405:3'): 07/27/2017: Too many adjustment vars in as.data.frame.modelsum (#12) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_equal(...) at test_modelsum.R:405:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─base::nrow(...)
5. ├─base::as.data.frame(...)
6. ├─arsenal::modelsum(y ~ x1, adjust = ~x7 + x2 + x3 + x5 + x8, data = df)
7. │ └─arsenal:::modelsum_guts(...)
8. │ ├─broom::glance(fit)
9. │ └─broom:::glance.lm(fit)
10. │ ├─base::with(...)
11. │ └─base::with.default(...)
12. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
13. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
14. │ └─tibble::tibble(...)
15. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
16. │ └─rlang::eval_tidy(xs[[j]], mask)
17. ├─stats::AIC(x)
18. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:411:3'): 07/27/2017: modelsum labels (#13) ──────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:411:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(bmi ~ age, adjust = ~sex, data = mockstudy)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:435:3'): 12/23/2017: non-syntactic names (#44, #45) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:435:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(summary(modelsum(y ~ x1x, data = dat)))
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(y ~ x1x, data = dat))
8. ├─arsenal::modelsum(y ~ x1x, data = dat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:456:3'): 01/05/2018: leading/trailing whitespace (#48) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:456:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(age ~ arm, data = set_labels(mockstudy, list(arm = " Arm ")))
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:484:3'): 02/23/2018: wrapping long labels (#59) ─────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:484:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::print(...)
8. ├─base::summary(...)
9. ├─arsenal::modelsum(...)
10. │ └─arsenal:::modelsum_guts(...)
11. │ ├─broom::glance(fit)
12. │ └─broom:::glance.lm(fit)
13. │ ├─base::with(...)
14. │ └─base::with.default(...)
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
17. │ └─tibble::tibble(...)
18. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
19. │ └─rlang::eval_tidy(xs[[j]], mask)
20. ├─stats::AIC(x)
21. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:513:3'): 05/31/2018: similar column names (#98) ─────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:513:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(modelsum(y ~ b, adjust = ~a + aa, data = dat))
8. ├─arsenal::modelsum(y ~ b, adjust = ~a + aa, data = dat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:533:3'): 05/31/2018: similar column names (#100) ────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:533:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:547:3'): 06/19/2018: term.name (#109) ───────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:547:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(Age ~ Sex + time, adjust = ~trt, data = mdat)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:564:3'): 08/24/2018: latex (#123) ───────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:564:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─utils::capture.output(...)
5. │ └─base::withVisible(...elt(i))
6. ├─base::summary(...)
7. ├─arsenal::modelsum(Age ~ Sex, adjust = ~trt, data = mdat)
8. │ └─arsenal:::modelsum_guts(...)
9. │ ├─broom::glance(fit)
10. │ └─broom:::glance.lm(fit)
11. │ ├─base::with(...)
12. │ └─base::with.default(...)
13. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─tibble::tibble(...)
16. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
17. │ └─rlang::eval_tidy(xs[[j]], mask)
18. ├─stats::AIC(x)
19. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:587:3'): 09/05/2018: correctly label contrasts for ordinal variables (#133) ──
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:587:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:624:3'): 08/07/2019: p.value.lrt (#238) ─────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─testthat::expect_identical(...) at test_modelsum.R:624:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─arsenal:::capture.kable(...)
5. │ └─utils::capture.output(x) at D:\RCompile\CRANpkg\local\4.6\arsenal.Rcheck\tests\testthat\helper-script.R:4:3
6. │ └─base::withVisible(...elt(i))
7. ├─base::summary(...)
8. ├─arsenal::modelsum(...)
9. │ └─arsenal:::modelsum_guts(...)
10. │ ├─broom::glance(fit)
11. │ └─broom:::glance.lm(fit)
12. │ ├─base::with(...)
13. │ └─base::with.default(...)
14. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
15. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
16. │ └─tibble::tibble(...)
17. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
18. │ └─rlang::eval_tidy(xs[[j]], mask)
19. ├─stats::AIC(x)
20. └─stats:::AIC.default(x)
── Error ('test_modelsum.R:650:3'): statistic.F works (#262) ───────────────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─arsenal::modelsum(...) at test_modelsum.R:650:3
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
── Error ('test_write2.R:57:3'): write2.list (summary objects) -> PDF ──────────
Error in `ll(object)`: could not find function "ll"
Backtrace:
▆
1. ├─base::summary(modelsum(age ~ sex, data = mockstudy), title = "A Title for modelsum") at test_write2.R:57:3
2. ├─arsenal::modelsum(age ~ sex, data = mockstudy)
3. │ └─arsenal:::modelsum_guts(...)
4. │ ├─broom::glance(fit)
5. │ └─broom:::glance.lm(fit)
6. │ ├─base::with(...)
7. │ └─base::with.default(...)
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
10. │ └─tibble::tibble(...)
11. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
12. │ └─rlang::eval_tidy(xs[[j]], mask)
13. ├─stats::AIC(x)
14. └─stats:::AIC.default(x)
[ FAIL 33 | WARN 0 | SKIP 11 | PASS 413 ]
Error: Test failures
Execution halted
Flavor: r-devel-windows-x86_64
Version: 3.6.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'comparedf.Rmd' using rmarkdown
--- finished re-building 'comparedf.Rmd'
--- re-building 'freqlist.Rmd' using rmarkdown
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-1'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'loading.data'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'console.output'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-2'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-3'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-4'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-5'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-6'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-7'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-8'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'labelTranslations'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'sparse'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'na.options'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'freq.counts'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-9'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'changelabs'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-10'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-11'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-12'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-13'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-14'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-15'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-16'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
Warning in eng_r(options) :
Failed to tidy R code in chunk 'unnamed-chunk-17'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.
--- finished re-building 'freqlist.Rmd'
--- re-building 'labels.Rmd' using rmarkdown
Quitting from labels.Rmd:42-49 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ll()`:
! could not find function "ll"
---
Backtrace:
▆
1. ├─base::summary(...)
2. ├─arsenal::modelsum(bmi ~ age, adjust = ~sex, data = mockstudy)
3. │ └─arsenal:::modelsum_guts(...)
4. │ ├─broom::glance(fit)
5. │ └─broom:::glance.lm(fit)
6. │ ├─base::with(...)
7. │ └─base::with.default(...)
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
10. │ └─tibble::tibble(...)
11. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
12. │ └─rlang::eval_tidy(xs[[j]], mask)
13. ├─stats::AIC(x)
14. └─stats:::AIC.default(x)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'labels.Rmd' failed with diagnostics:
could not find function "ll"
--- failed re-building 'labels.Rmd'
--- re-building 'modelsum.Rmd' using rmarkdown
Quitting from modelsum.Rmd:63-65 [simple1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `ll()`:
! could not find function "ll"
---
Backtrace:
▆
1. ├─arsenal::modelsum(bmi ~ sex + age, data = mockstudy)
2. │ └─arsenal:::modelsum_guts(...)
3. │ ├─broom::glance(fit)
4. │ └─broom:::glance.lm(fit)
5. │ ├─base::with(...)
6. │ └─base::with.default(...)
7. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
8. │ └─base::eval(substitute(expr), data, enclos = parent.frame())
9. │ └─tibble::tibble(...)
10. │ └─tibble:::tibble_quos(xs, .rows, .name_repair)
11. │ └─rlang::eval_tidy(xs[[j]], mask)
12. ├─stats::AIC(x)
13. └─stats:::AIC.default(x)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'modelsum.Rmd' failed with diagnostics:
could not find function "ll"
--- failed re-building 'modelsum.Rmd'
--- re-building 'paired.Rmd' using rmarkdown
--- finished re-building 'paired.Rmd'
--- re-building 'tableby.Rmd' using rmarkdown
--- finished re-building 'tableby.Rmd'
--- re-building 'write2.Rmd' using rmarkdown
--- finished re-building 'write2.Rmd'
SUMMARY: processing the following files failed:
'labels.Rmd' 'modelsum.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64