Last updated on 2026-07-09 14:00:35 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 3.1.13 | 115.01 | 188.38 | 303.39 | ERROR | --no-tests |
| r-devel-linux-x86_64-debian-gcc | 3.1.13 | 75.11 | 131.23 | 206.34 | ERROR | --no-tests |
| r-devel-linux-x86_64-fedora-clang | 3.1.13 | 154.00 | 1131.30 | 1285.30 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 3.1.13 | 196.00 | 1448.50 | 1644.50 | ERROR | |
| r-devel-windows-x86_64 | 3.1.13 | 138.00 | 369.00 | 507.00 | ERROR | |
| r-patched-linux-x86_64 | 3.1.13 | 106.88 | 174.37 | 281.25 | OK | --no-tests |
| r-release-linux-x86_64 | 3.1.13 | 104.50 | 176.49 | 280.99 | OK | --no-tests |
| r-release-macos-arm64 | 3.1.13 | 23.00 | 306.00 | 329.00 | OK | |
| r-release-macos-x86_64 | 3.1.13 | 66.00 | 1655.00 | 1721.00 | OK | |
| r-release-windows-x86_64 | 3.1.13 | 139.00 | 364.00 | 503.00 | ERROR | |
| r-oldrel-macos-arm64 | 3.1.13 | 19.00 | 285.00 | 304.00 | OK | |
| r-oldrel-macos-x86_64 | 3.1.13 | 64.00 | 795.00 | 859.00 | OK | |
| r-oldrel-windows-x86_64 | 3.1.13 | 153.00 | 566.00 | 719.00 | ERROR |
Version: 3.1.13
Flags: --no-tests
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘data_simulation.Rmd’ using rmarkdown
--- finished re-building ‘data_simulation.Rmd’
--- re-building ‘mixed_effect_BN_model.Rmd’ using rmarkdown
Quitting from mixed_effect_BN_model.Rmd:130-146 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `{
forLoopContent(row.num = row.num, mycache = mycache, data.dists = data.dists,
data.df.multi = data.df.multi, adj.vars = adj.vars, data.df = data.df,
data.df.lvl = data.df.lvl, group.var = group.var, group.ids = group.ids,
control = control, n = nvars, verbose = verbose)
}`:
! task 25 failed - "no applicable method for 'logLik' applied to an object of class "function""
---
Backtrace:
▆
1. └─abn::buildScoreCache(...)
2. └─abn::buildScoreCache.mle(...)
3. └─... %do% ...
4. └─e$fun(obj, substitute(ex), parent.frame(), e$data)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'mixed_effect_BN_model.Rmd' failed with diagnostics:
task 25 failed - "no applicable method for 'logLik' applied to an object of class "function""
--- failed re-building ‘mixed_effect_BN_model.Rmd’
--- re-building ‘model_specification.Rmd’ using rmarkdown
--- finished re-building ‘model_specification.Rmd’
--- re-building ‘multiprocessing.Rmd’ using rmarkdown
--- finished re-building ‘multiprocessing.Rmd’
--- re-building ‘parameter_learning.Rmd’ using rmarkdown
--- finished re-building ‘parameter_learning.Rmd’
--- re-building ‘quick_start_example.Rmd’ using rmarkdown
--- finished re-building ‘quick_start_example.Rmd’
--- re-building ‘structure_learning.Rmd’ using rmarkdown
--- finished re-building ‘structure_learning.Rmd’
SUMMARY: processing the following file failed:
‘mixed_effect_BN_model.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 3.1.13
Flags: --no-tests
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘data_simulation.Rmd’ using rmarkdown
--- finished re-building ‘data_simulation.Rmd’
--- re-building ‘mixed_effect_BN_model.Rmd’ using rmarkdown
Quitting from mixed_effect_BN_model.Rmd:130-146 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `{
forLoopContent(row.num = row.num, mycache = mycache, data.dists = data.dists,
data.df.multi = data.df.multi, adj.vars = adj.vars, data.df = data.df,
data.df.lvl = data.df.lvl, group.var = group.var, group.ids = group.ids,
control = control, n = nvars, verbose = verbose)
}`:
! task 26 failed - "no applicable method for 'logLik' applied to an object of class "function""
---
Backtrace:
▆
1. └─abn::buildScoreCache(...)
2. └─abn::buildScoreCache.mle(...)
3. └─... %do% ...
4. └─e$fun(obj, substitute(ex), parent.frame(), e$data)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'mixed_effect_BN_model.Rmd' failed with diagnostics:
task 26 failed - "no applicable method for 'logLik' applied to an object of class "function""
--- failed re-building ‘mixed_effect_BN_model.Rmd’
--- re-building ‘model_specification.Rmd’ using rmarkdown
--- finished re-building ‘model_specification.Rmd’
--- re-building ‘multiprocessing.Rmd’ using rmarkdown
--- finished re-building ‘multiprocessing.Rmd’
--- re-building ‘parameter_learning.Rmd’ using rmarkdown
--- finished re-building ‘parameter_learning.Rmd’
--- re-building ‘quick_start_example.Rmd’ using rmarkdown
--- finished re-building ‘quick_start_example.Rmd’
--- re-building ‘structure_learning.Rmd’ using rmarkdown
--- finished re-building ‘structure_learning.Rmd’
SUMMARY: processing the following file failed:
‘mixed_effect_BN_model.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 3.1.13
Check: tests
Result: ERROR
Running ‘testthat.R’ [15m/15m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(abn)
abn version 3.1.13 (2025-12-18) is loaded.
To cite the package 'abn' in publications call: citation('abn').
>
> # Set the number of threads for BLAS and OpenMP if possible
> if (requireNamespace("RhpcBLASctl", quietly = TRUE)) {
+ RhpcBLASctl::blas_set_num_threads(2)
+ } else {
+ # E.g., on CRAN noSuggests environment, RhpcBLASctl is not available
+ message("RhpcBLASctl is not available, BLAS thread control will not be set.")
+ }
>
> test_check("abn")
Loading required package: Matrix
Running in single core mode. 'cluster.type' is ignored.
Running in single core mode. 'cluster.type' is ignored.
OMP: Warning #96: Cannot form a team with 8 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
[ FAIL 1 | WARN 1 | SKIP 58 | PASS 499 ]
══ Skipped tests (58) ══════════════════════════════════════════════════════════
• BuildScoreCache(method=mle) crashes with Poisson nodes (1):
'test-fitabn_mle.R:138:3'
• INLA is not tested on CRAN (2): 'test-build_score_cache.R:124:5',
'test-search_hillclimber.R:79:7'
• On CRAN (54): 'test-Coutput.R:1:1', 'test-abn-internal.R:138:3',
'test-abn-methods.R:52:3', 'test-abn-methods.R:78:3',
'test-abn-methods.R:99:3', 'test-abn-methods.R:125:3',
'test-abn-methods.R:148:3', 'test-abn-methods.R:177:3',
'test-abn-methods.R:200:3', 'test-abn-methods.R:223:3',
'test-abn-methods.R:251:3', 'test-abn-methods.R:276:3',
'test-abn-methods.R:301:3', 'test-abn-methods.R:326:3',
'test-abn-methods.R:351:3', 'test-abn-methods.R:376:3',
'test-abn-methods.R:401:3', 'test-abn-methods.R:426:3',
'test-abn-methods.R:451:3', 'test-build_score_cache.R:129:3',
'test-build_score_cache.R:188:3', 'test-build_score_cache.R:338:3',
'test-build_score_cache.R:393:3', 'test-build_score_cache.R:441:3',
'test-build_score_cache_bayes.R:2:3', 'test-build_score_cache_bayes.R:33:3',
'test-build_score_cache_bayes.R:91:3',
'test-build_score_cache_bayes.R:127:3', 'test-calc_node_inla_glm.R:2:3',
'test-calc_node_inla_glmm.R:2:3', 'test-fitabn.R:26:3', 'test-fitabn.R:56:3',
'test-fitabn.R:75:3', 'test-fitabn.R:94:3', 'test-fitabn.R:136:3',
'test-fitabn.R:190:3', 'test-fitabn.R:379:3', 'test-fitabn_bayes.R:2:3',
'test-fitabn_mle.R:575:11', 'test-fitabn_mle.R:691:11',
'test-mostprobable.R:2:3', 'test-mostprobable.R:12:3',
'test-mostprobable.R:79:3', 'test-mostprobable.R:169:3',
'test-mostprobable.R:211:3', 'test-plot-abn.R:1:1', 'test-plot-abn.R:126:3',
'test-search_heuristic.R:2:3', 'test-search_hillclimber.R:16:3',
'test-search_hillclimber.R:84:3', 'test-simulateabn.R:508:3',
'test-simulateabn.R:810:3', 'test-tographviz.R:1:1', 'test-tographviz.R:52:1'
• Plot classic view is deprecated. (1): 'test-plot-abn.R:118:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-simulateabn.R:945:13'): simulateAbn() works with grouping in real data. ──
Error in `{ forLoopContent(row.num = row.num, mycache = mycache, data.dists = data.dists, data.df.multi = data.df.multi, adj.vars = adj.vars, data.df = data.df, data.df.lvl = data.df.lvl, group.var = group.var, group.ids = group.ids, control = control, n = nvars, verbose = verbose) }`: task 503 failed - "object 'fit' not found"
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-simulateabn.R:914:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressWarnings(...) at test-simulateabn.R:915:5
4. │ └─base::withCallingHandlers(...)
5. ├─utils::capture.output(...) at test-simulateabn.R:917:9
6. │ └─base::withVisible(...elt(i))
7. └─abn::buildScoreCache(...) at test-simulateabn.R:945:13
8. └─abn::buildScoreCache.mle(...)
9. └─... %do% ...
10. └─e$fun(obj, substitute(ex), parent.frame(), e$data)
[ FAIL 1 | WARN 1 | SKIP 58 | PASS 499 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 3.1.13
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘data_simulation.Rmd’ using rmarkdown
--- finished re-building ‘data_simulation.Rmd’
--- re-building ‘mixed_effect_BN_model.Rmd’ using rmarkdown
Quitting from mixed_effect_BN_model.Rmd:130-146 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `{
forLoopContent(row.num = row.num, mycache = mycache, data.dists = data.dists,
data.df.multi = data.df.multi, adj.vars = adj.vars, data.df = data.df,
data.df.lvl = data.df.lvl, group.var = group.var, group.ids = group.ids,
control = control, n = nvars, verbose = verbose)
}`:
! task 26 failed - "no applicable method for 'logLik' applied to an object of class "function""
---
Backtrace:
▆
1. └─abn::buildScoreCache(...)
2. └─abn::buildScoreCache.mle(...)
3. └─... %do% ...
4. └─e$fun(obj, substitute(ex), parent.frame(), e$data)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'mixed_effect_BN_model.Rmd' failed with diagnostics:
task 26 failed - "no applicable method for 'logLik' applied to an object of class "function""
--- failed re-building ‘mixed_effect_BN_model.Rmd’
--- re-building ‘model_specification.Rmd’ using rmarkdown
--- finished re-building ‘model_specification.Rmd’
--- re-building ‘multiprocessing.Rmd’ using rmarkdown
--- finished re-building ‘multiprocessing.Rmd’
--- re-building ‘parameter_learning.Rmd’ using rmarkdown
--- finished re-building ‘parameter_learning.Rmd’
--- re-building ‘quick_start_example.Rmd’ using rmarkdown
--- finished re-building ‘quick_start_example.Rmd’
--- re-building ‘structure_learning.Rmd’ using rmarkdown
--- finished re-building ‘structure_learning.Rmd’
SUMMARY: processing the following file failed:
‘mixed_effect_BN_model.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 3.1.13
Check: tests
Result: ERROR
Running ‘testthat.R’ [20m/21m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(abn)
abn version 3.1.13 (2025-12-18) is loaded.
To cite the package 'abn' in publications call: citation('abn').
>
> # Set the number of threads for BLAS and OpenMP if possible
> if (requireNamespace("RhpcBLASctl", quietly = TRUE)) {
+ RhpcBLASctl::blas_set_num_threads(2)
+ } else {
+ # E.g., on CRAN noSuggests environment, RhpcBLASctl is not available
+ message("RhpcBLASctl is not available, BLAS thread control will not be set.")
+ }
>
> test_check("abn")
Loading required package: Matrix
Running in single core mode. 'cluster.type' is ignored.
Running in single core mode. 'cluster.type' is ignored.
[ FAIL 1 | WARN 1 | SKIP 58 | PASS 499 ]
══ Skipped tests (58) ══════════════════════════════════════════════════════════
• BuildScoreCache(method=mle) crashes with Poisson nodes (1):
'test-fitabn_mle.R:138:3'
• INLA is not tested on CRAN (2): 'test-build_score_cache.R:124:5',
'test-search_hillclimber.R:79:7'
• On CRAN (54): 'test-Coutput.R:1:1', 'test-abn-internal.R:138:3',
'test-abn-methods.R:52:3', 'test-abn-methods.R:78:3',
'test-abn-methods.R:99:3', 'test-abn-methods.R:125:3',
'test-abn-methods.R:148:3', 'test-abn-methods.R:177:3',
'test-abn-methods.R:200:3', 'test-abn-methods.R:223:3',
'test-abn-methods.R:251:3', 'test-abn-methods.R:276:3',
'test-abn-methods.R:301:3', 'test-abn-methods.R:326:3',
'test-abn-methods.R:351:3', 'test-abn-methods.R:376:3',
'test-abn-methods.R:401:3', 'test-abn-methods.R:426:3',
'test-abn-methods.R:451:3', 'test-build_score_cache.R:129:3',
'test-build_score_cache.R:188:3', 'test-build_score_cache.R:338:3',
'test-build_score_cache.R:393:3', 'test-build_score_cache.R:441:3',
'test-build_score_cache_bayes.R:2:3', 'test-build_score_cache_bayes.R:33:3',
'test-build_score_cache_bayes.R:91:3',
'test-build_score_cache_bayes.R:127:3', 'test-calc_node_inla_glm.R:2:3',
'test-calc_node_inla_glmm.R:2:3', 'test-fitabn.R:26:3', 'test-fitabn.R:56:3',
'test-fitabn.R:75:3', 'test-fitabn.R:94:3', 'test-fitabn.R:136:3',
'test-fitabn.R:190:3', 'test-fitabn.R:379:3', 'test-fitabn_bayes.R:2:3',
'test-fitabn_mle.R:575:11', 'test-fitabn_mle.R:691:11',
'test-mostprobable.R:2:3', 'test-mostprobable.R:12:3',
'test-mostprobable.R:79:3', 'test-mostprobable.R:169:3',
'test-mostprobable.R:211:3', 'test-plot-abn.R:1:1', 'test-plot-abn.R:126:3',
'test-search_heuristic.R:2:3', 'test-search_hillclimber.R:16:3',
'test-search_hillclimber.R:84:3', 'test-simulateabn.R:508:3',
'test-simulateabn.R:810:3', 'test-tographviz.R:1:1', 'test-tographviz.R:52:1'
• Plot classic view is deprecated. (1): 'test-plot-abn.R:118:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-simulateabn.R:945:13'): simulateAbn() works with grouping in real data. ──
Error in `{ forLoopContent(row.num = row.num, mycache = mycache, data.dists = data.dists, data.df.multi = data.df.multi, adj.vars = adj.vars, data.df = data.df, data.df.lvl = data.df.lvl, group.var = group.var, group.ids = group.ids, control = control, n = nvars, verbose = verbose) }`: task 506 failed - "object 'fit' not found"
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-simulateabn.R:914:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressWarnings(...) at test-simulateabn.R:915:5
4. │ └─base::withCallingHandlers(...)
5. ├─utils::capture.output(...) at test-simulateabn.R:917:9
6. │ └─base::withVisible(...elt(i))
7. └─abn::buildScoreCache(...) at test-simulateabn.R:945:13
8. └─abn::buildScoreCache.mle(...)
9. └─... %do% ...
10. └─e$fun(obj, substitute(ex), parent.frame(), e$data)
[ FAIL 1 | WARN 1 | SKIP 58 | PASS 499 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 3.1.13
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'data_simulation.Rmd' using rmarkdown
--- finished re-building 'data_simulation.Rmd'
--- re-building 'mixed_effect_BN_model.Rmd' using rmarkdown
--- re-building 'model_specification.Rmd' using rmarkdown
--- finished re-building 'model_specification.Rmd'
--- re-building 'multiprocessing.Rmd' using rmarkdown
--- finished re-building 'multiprocessing.Rmd'
--- re-building 'parameter_learning.Rmd' using rmarkdown
--- finished re-building 'parameter_learning.Rmd'
--- re-building 'quick_start_example.Rmd' using rmarkdown
--- finished re-building 'quick_start_example.Rmd'
--- re-building 'structure_learning.Rmd' using rmarkdown
--- finished re-building 'structure_learning.Rmd'
SUMMARY: processing the following file failed:
'mixed_effect_BN_model.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64