Last updated on 2025-12-04 02:50:23 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-fedora-clang | 1.0.0 | 23.00 | 590.27 | 613.27 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.0 | 18.00 | 582.34 | 600.34 | ERROR | |
| r-release-macos-arm64 | 1.0.0 | 2.00 | 219.00 | 221.00 | ERROR | |
| r-release-macos-x86_64 | 1.0.0 | 9.00 | 272.00 | 281.00 | ERROR | |
| r-oldrel-macos-arm64 | 1.0.0 | 2.00 | 104.00 | 106.00 | ERROR | |
| r-oldrel-macos-x86_64 | 1.0.0 | 9.00 | 216.00 | 225.00 | ERROR |
Version: 1.0.0
Check: dependencies in R code
Result: NOTE
Namespace in Imports field not imported from: ‘devtools’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘spelling.R’
Running ‘testthat.R’ [426s/219s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(CimpleG)
---------------------
CimpleG version 1.0.0
---------------------
>
> test_check("CimpleG")
Starting 2 test processes.
> test-CimpleG.R: Warning: stack imbalance in '::', 115 then 117
> test-CimpleG.R: Warning: stack imbalance in '<-', 113 then 115
> test-CimpleG.R: Setting options('download.file.method.GEOquery'='auto')
> test-CimpleG.R: Setting options('GEOquery.inmemory.gpl'=FALSE)
> test-CimpleG.R: OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
> test-CimpleG.R: OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP
> test-CimpleG.R: _ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
> test-CimpleG.R: Warning: stack imbalance in '{', 109 then 111
Saving _problems/test3-CimpleG-xgboost-13.R
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test1-CimpleG-decisiontree.R:3:3', 'test1-CimpleG-nnet.R:3:3',
'test1-CimpleG-rf.R:3:3'
• parallel not working properly locally (1): 'test8-CimpleG-parallel.R:4:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test3-CimpleG-xgboost.R:5:3'): signatures are generated w/ xgboost ──
<purrr_error_indexed/rlang_error/error/condition>
Error in `purrr::map(.x = target_columns, .f = work_helper)`: i In index: 1.
Caused by error in `x$callbacks <- purrr::map(x$callbacks, function(x) as.function(c(formals(x),
body(x)), env = rlang::base_env()))`:
! ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test3-CimpleG-xgboost.R:5:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressMessages(...)
4. │ └─base::withCallingHandlers(...)
5. ├─CimpleG::CimpleG(...)
6. ├─CimpleG:::CimpleG.matrix(...)
7. │ └─CimpleG:::CimpleG_main(...)
8. │ ├─purrr::map(.x = target_columns, .f = work_helper) %>% ...
9. │ └─purrr::map(.x = target_columns, .f = work_helper)
10. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
11. │ ├─purrr:::with_indexed_errors(...)
12. │ │ └─base::withCallingHandlers(...)
13. │ ├─purrr:::call_with_cleanup(...)
14. │ └─CimpleG (local) .f(.x[[i]], ...)
15. │ └─CimpleG:::train_general_model(...)
16. │ └─cimpleg_final_model %>% butcher::axe_call() %>% butcher::axe_env()
17. ├─butcher::axe_env(.)
18. ├─workflows:::axe_env.workflow(.)
19. │ ├─butcher::axe_env(fit, verbose = verbose, ...)
20. │ └─butcher:::axe_env.model_fit(fit, verbose = verbose, ...)
21. │ ├─butcher::axe_env(x$fit, verbose = verbose, ...)
22. │ └─butcher:::axe_env.xgb.Booster(x$fit, verbose = verbose, ...)
23. └─base::.handleSimpleError(...)
24. └─purrr (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘spelling.R’
Running ‘testthat.R’ [408s/212s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(CimpleG)
---------------------
CimpleG version 1.0.0
---------------------
>
> test_check("CimpleG")
Starting 2 test processes.
> test-CimpleG.R: Warning: stack imbalance in '::', 115 then 117
> test-CimpleG.R: Warning: stack imbalance in '<-', 113 then 115
> test-CimpleG.R: Setting options('download.file.method.GEOquery'='auto')
> test-CimpleG.R: Setting options('GEOquery.inmemory.gpl'=FALSE)
> test-CimpleG.R: Warning: stack imbalance in '{', 109 then 111
Saving _problems/test3-CimpleG-xgboost-13.R
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test1-CimpleG-decisiontree.R:3:3', 'test1-CimpleG-nnet.R:3:3',
'test1-CimpleG-rf.R:3:3'
• parallel not working properly locally (1): 'test8-CimpleG-parallel.R:4:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test3-CimpleG-xgboost.R:5:3'): signatures are generated w/ xgboost ──
<purrr_error_indexed/rlang_error/error/condition>
Error in `purrr::map(.x = target_columns, .f = work_helper)`: i In index: 1.
Caused by error in `x$callbacks <- purrr::map(x$callbacks, function(x) as.function(c(formals(x),
body(x)), env = rlang::base_env()))`:
! ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test3-CimpleG-xgboost.R:5:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressMessages(...)
4. │ └─base::withCallingHandlers(...)
5. ├─CimpleG::CimpleG(...)
6. ├─CimpleG:::CimpleG.matrix(...)
7. │ └─CimpleG:::CimpleG_main(...)
8. │ ├─purrr::map(.x = target_columns, .f = work_helper) %>% ...
9. │ └─purrr::map(.x = target_columns, .f = work_helper)
10. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
11. │ ├─purrr:::with_indexed_errors(...)
12. │ │ └─base::withCallingHandlers(...)
13. │ ├─purrr:::call_with_cleanup(...)
14. │ └─CimpleG (local) .f(.x[[i]], ...)
15. │ └─CimpleG:::train_general_model(...)
16. │ └─cimpleg_final_model %>% butcher::axe_call() %>% butcher::axe_env()
17. ├─butcher::axe_env(.)
18. ├─workflows:::axe_env.workflow(.)
19. │ ├─butcher::axe_env(fit, verbose = verbose, ...)
20. │ └─butcher:::axe_env.model_fit(fit, verbose = verbose, ...)
21. │ ├─butcher::axe_env(x$fit, verbose = verbose, ...)
22. │ └─butcher:::axe_env.xgb.Booster(x$fit, verbose = verbose, ...)
23. └─base::.handleSimpleError(...)
24. └─purrr (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/0s]
Running ‘testthat.R’ [50s/26s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(CimpleG)
---------------------
CimpleG version 1.0.0
---------------------
>
> test_check("CimpleG")
Starting 2 test processes.
> test-CimpleG.R: Setting options('download.file.method.GEOquery'='auto')
> test-CimpleG.R: Setting options('GEOquery.inmemory.gpl'=FALSE)
Saving _problems/test3-CimpleG-xgboost-13.R
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test1-CimpleG-decisiontree.R:3:3', 'test1-CimpleG-nnet.R:3:3',
'test1-CimpleG-rf.R:3:3'
• parallel not working properly locally (1): 'test8-CimpleG-parallel.R:4:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test3-CimpleG-xgboost.R:5:3'): signatures are generated w/ xgboost ──
<purrr_error_indexed/rlang_error/error/condition>
Error in `purrr::map(.x = target_columns, .f = work_helper)`: i In index: 1.
Caused by error in `x$callbacks <- purrr::map(x$callbacks, function(x) as.function(c(formals(x),
body(x)), env = rlang::base_env()))`:
! ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test3-CimpleG-xgboost.R:5:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressMessages(...)
4. │ └─base::withCallingHandlers(...)
5. ├─CimpleG::CimpleG(...)
6. ├─CimpleG:::CimpleG.matrix(...)
7. │ └─CimpleG:::CimpleG_main(...)
8. │ ├─purrr::map(.x = target_columns, .f = work_helper) %>% ...
9. │ └─purrr::map(.x = target_columns, .f = work_helper)
10. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
11. │ ├─purrr:::with_indexed_errors(...)
12. │ │ └─base::withCallingHandlers(...)
13. │ ├─purrr:::call_with_cleanup(...)
14. │ └─CimpleG (local) .f(.x[[i]], ...)
15. │ └─CimpleG:::train_general_model(...)
16. │ └─cimpleg_final_model %>% butcher::axe_call() %>% butcher::axe_env()
17. ├─butcher::axe_env(.)
18. ├─workflows:::axe_env.workflow(.)
19. │ ├─butcher::axe_env(fit, verbose = verbose, ...)
20. │ └─butcher:::axe_env.model_fit(fit, verbose = verbose, ...)
21. │ ├─butcher::axe_env(x$fit, verbose = verbose, ...)
22. │ └─butcher:::axe_env.xgb.Booster(x$fit, verbose = verbose, ...)
23. └─base::.handleSimpleError(...)
24. └─purrr (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
Error:
! Test failures.
Execution halted
Flavor: r-release-macos-arm64
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/0s]
Running ‘testthat.R’ [163s/146s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(CimpleG)
---------------------
CimpleG version 1.0.0
---------------------
>
> test_check("CimpleG")
Starting 2 test processes.
Saving _problems/test3-CimpleG-xgboost-13.R
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test1-CimpleG-decisiontree.R:3:3', 'test1-CimpleG-nnet.R:3:3',
'test1-CimpleG-rf.R:3:3'
• parallel not working properly locally (1): 'test8-CimpleG-parallel.R:4:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test3-CimpleG-xgboost.R:5:3'): signatures are generated w/ xgboost ──
<purrr_error_indexed/rlang_error/error/condition>
Error in `purrr::map(.x = target_columns, .f = work_helper)`: i In index: 1.
Caused by error in `x$callbacks <- purrr::map(x$callbacks, function(x) as.function(c(formals(x),
body(x)), env = rlang::base_env()))`:
! ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test3-CimpleG-xgboost.R:5:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressMessages(...)
4. │ └─base::withCallingHandlers(...)
5. ├─CimpleG::CimpleG(...)
6. ├─CimpleG:::CimpleG.matrix(...)
7. │ └─CimpleG:::CimpleG_main(...)
8. │ ├─purrr::map(.x = target_columns, .f = work_helper) %>% ...
9. │ └─purrr::map(.x = target_columns, .f = work_helper)
10. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
11. │ ├─purrr:::with_indexed_errors(...)
12. │ │ └─base::withCallingHandlers(...)
13. │ ├─purrr:::call_with_cleanup(...)
14. │ └─CimpleG (local) .f(.x[[i]], ...)
15. │ └─CimpleG:::train_general_model(...)
16. │ └─cimpleg_final_model %>% butcher::axe_call() %>% butcher::axe_env()
17. ├─butcher::axe_env(.)
18. ├─workflows:::axe_env.workflow(.)
19. │ ├─butcher::axe_env(fit, verbose = verbose, ...)
20. │ └─butcher:::axe_env.model_fit(fit, verbose = verbose, ...)
21. │ ├─butcher::axe_env(x$fit, verbose = verbose, ...)
22. │ └─butcher:::axe_env.xgb.Booster(x$fit, verbose = verbose, ...)
23. └─base::.handleSimpleError(...)
24. └─purrr (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
Error:
! Test failures.
Execution halted
Flavor: r-release-macos-x86_64
Version: 1.0.0
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘EpiDISH’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/0s]
Running ‘testthat.R’ [49s/25s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(CimpleG)
---------------------
CimpleG version 1.0.0
---------------------
>
> test_check("CimpleG")
Starting 2 test processes.
> test-CimpleG.R: Setting options('download.file.method.GEOquery'='auto')
> test-CimpleG.R: Setting options('GEOquery.inmemory.gpl'=FALSE)
Saving _problems/test3-CimpleG-xgboost-13.R
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test1-CimpleG-decisiontree.R:3:3', 'test1-CimpleG-nnet.R:3:3',
'test1-CimpleG-rf.R:3:3'
• parallel not working properly locally (1): 'test8-CimpleG-parallel.R:4:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test3-CimpleG-xgboost.R:5:3'): signatures are generated w/ xgboost ──
<purrr_error_indexed/rlang_error/error/condition>
Error in `purrr::map(.x = target_columns, .f = work_helper)`: i In index: 1.
Caused by error in `x$callbacks <- purrr::map(x$callbacks, function(x) as.function(c(formals(x),
body(x)), env = rlang::base_env()))`:
! ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test3-CimpleG-xgboost.R:5:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressMessages(...)
4. │ └─base::withCallingHandlers(...)
5. ├─CimpleG::CimpleG(...)
6. ├─CimpleG:::CimpleG.matrix(...)
7. │ └─CimpleG:::CimpleG_main(...)
8. │ ├─purrr::map(.x = target_columns, .f = work_helper) %>% ...
9. │ └─purrr::map(.x = target_columns, .f = work_helper)
10. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
11. │ ├─purrr:::with_indexed_errors(...)
12. │ │ └─base::withCallingHandlers(...)
13. │ ├─purrr:::call_with_cleanup(...)
14. │ └─CimpleG (local) .f(.x[[i]], ...)
15. │ └─CimpleG:::train_general_model(...)
16. │ └─cimpleg_final_model %>% butcher::axe_call() %>% butcher::axe_env()
17. ├─butcher::axe_env(.)
18. ├─workflows:::axe_env.workflow(.)
19. │ ├─butcher::axe_env(fit, verbose = verbose, ...)
20. │ └─butcher:::axe_env.model_fit(fit, verbose = verbose, ...)
21. │ ├─butcher::axe_env(x$fit, verbose = verbose, ...)
22. │ └─butcher:::axe_env.xgb.Booster(x$fit, verbose = verbose, ...)
23. └─base::.handleSimpleError(...)
24. └─purrr (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-macos-arm64
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/0s]
Running ‘testthat.R’ [160s/90s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(CimpleG)
---------------------
CimpleG version 1.0.0
---------------------
>
> test_check("CimpleG")
Starting 2 test processes.
> test-CimpleG.R: Setting options('download.file.method.GEOquery'='auto')
> test-CimpleG.R: Setting options('GEOquery.inmemory.gpl'=FALSE)
Saving _problems/test3-CimpleG-xgboost-13.R
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test1-CimpleG-decisiontree.R:3:3', 'test1-CimpleG-nnet.R:3:3',
'test1-CimpleG-rf.R:3:3'
• parallel not working properly locally (1): 'test8-CimpleG-parallel.R:4:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test3-CimpleG-xgboost.R:5:3'): signatures are generated w/ xgboost ──
<purrr_error_indexed/rlang_error/error/condition>
Error in `purrr::map(.x = target_columns, .f = work_helper)`: i In index: 1.
Caused by error in `x$callbacks <- purrr::map(x$callbacks, function(x) as.function(c(formals(x),
body(x)), env = rlang::base_env()))`:
! ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test3-CimpleG-xgboost.R:5:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressMessages(...)
4. │ └─base::withCallingHandlers(...)
5. ├─CimpleG::CimpleG(...)
6. ├─CimpleG:::CimpleG.matrix(...)
7. │ └─CimpleG:::CimpleG_main(...)
8. │ ├─purrr::map(.x = target_columns, .f = work_helper) %>% ...
9. │ └─purrr::map(.x = target_columns, .f = work_helper)
10. │ └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
11. │ ├─purrr:::with_indexed_errors(...)
12. │ │ └─base::withCallingHandlers(...)
13. │ ├─purrr:::call_with_cleanup(...)
14. │ └─CimpleG (local) .f(.x[[i]], ...)
15. │ └─CimpleG:::train_general_model(...)
16. │ └─cimpleg_final_model %>% butcher::axe_call() %>% butcher::axe_env()
17. ├─butcher::axe_env(.)
18. ├─workflows:::axe_env.workflow(.)
19. │ ├─butcher::axe_env(fit, verbose = verbose, ...)
20. │ └─butcher:::axe_env.model_fit(fit, verbose = verbose, ...)
21. │ ├─butcher::axe_env(x$fit, verbose = verbose, ...)
22. │ └─butcher:::axe_env.xgb.Booster(x$fit, verbose = verbose, ...)
23. └─base::.handleSimpleError(...)
24. └─purrr (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 4 | PASS 62 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-macos-x86_64