Last updated on 2025-12-03 18:50:08 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 37.69 | 765.78 | 803.47 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 23.42 | 509.20 | 532.62 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.10.0 | 153.00 | 1182.20 | 1335.20 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.10.0 | 156.00 | 1190.94 | 1346.94 | OK | |
| r-devel-windows-x86_64 | 0.10.0 | 37.00 | 557.00 | 594.00 | OK | |
| r-patched-linux-x86_64 | 0.10.0 | 55.62 | 706.16 | 761.78 | OK | |
| r-release-linux-x86_64 | 0.10.0 | 33.92 | 705.86 | 739.78 | ERROR | |
| r-release-macos-arm64 | 0.10.0 | OK | ||||
| r-release-macos-x86_64 | 0.10.0 | 37.00 | 531.00 | 568.00 | OK | |
| r-release-windows-x86_64 | 0.10.0 | 39.00 | 515.00 | 554.00 | OK | |
| r-oldrel-macos-arm64 | 0.10.0 | 10.00 | 116.00 | 126.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.10.0 | 61.00 | 534.00 | 595.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 54.00 | 617.00 | 671.00 | ERROR |
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [427s/210s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
Saving _problems/test_filter_ensemble-294.R
Saving _problems/test_filter_ensemble-307.R
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-depr
> test_mlr_graphs_robustify.R: ecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_isomap.R: 2025-11-29 16:11:02.279489: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:02.28023: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:02.289827: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:02.309264: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:02.367778: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:02.368258: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:02.377531: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:02.397061: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:02.458491: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:02.459182: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:02.47361: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:02.517176: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:02.518342: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:02.541654: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:02.542128: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:02.555725: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:02.600298: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:02.601701: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:02.681252: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:02.68175: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:02.699243: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:02.803264: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:02.836262: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:02.836912: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:02.870789: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.07982: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:03.097722: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:03.239251: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.239693: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:03.24714: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.266608: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:03.2969: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.297562: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:03.31355: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.354947: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:03.356141: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:03.489363: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.489792: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:03.498733: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.517413: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:03.562348: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.564548: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:03.579281: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.621957: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:03.623067: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:03.71452: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.714961: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:03.724657: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.74558: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:03.787524: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.788173: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:03.801627: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.848686: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:03.849905: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:03.922364: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.92283: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:03.930304: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:03.948301: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:03.995377: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:03.996032: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:04.010417: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:04.053577: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:04.054799: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:04.130713: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:04.131173: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:04.152408: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:04.171641: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:04.218403: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-29 16:11:04.219074: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:04.235689: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:04.279585: embedding
> test_pipeop_isomap.R: 2025-11-29 16:11:04.280857: DONE
> test_pipeop_isomap.R: 2025-11-29 16:11:04.365453: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:04.365898: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:04.373423: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:04.392494: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:04.471998: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:04.472474: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:04.479881: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:04.498398: Classical Scaling
> test_pipeop_isomap.R: 2025-11-29 16:11:04.520849: Isomap START
> test_pipeop_isomap.R: 2025-11-29 16:11:04.521299: constructing knn graph
> test_pipeop_isomap.R: 2025-11-29 16:11:04.528664: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-29 16:11:04.547723: Classical Scaling
> test_pipeop_nmf.R: [PipeOpNMFstate]
> test_pipeop_nmf.R: [PipeOpNMFstate]
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_textvectorizer.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_pipeop_textvectorizer.R: Use 'as(., "TsparseMatrix")' instead.
> test_pipeop_textvectorizer.R: See help("Deprecated") and help("Matrix-deprecated").
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 2 | WARN 0 | SKIP 100 | PASS 13055 ]
══ Skipped tests (100) ═════════════════════════════════════════════════════════
• On CRAN (96): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_datefeatures.R:10:3',
'test_pipeop_encodepl.R:5:3', 'test_pipeop_encodepl.R:72:3',
'test_pipeop_encodelmer.R:15:3', 'test_pipeop_encodelmer.R:37:3',
'test_pipeop_encodelmer.R:80:3', 'test_pipeop_featureunion.R:9:3',
'test_pipeop_featureunion.R:134:3', 'test_pipeop_filter.R:7:3',
'test_pipeop_fixfactors.R:9:3', 'test_pipeop_histbin.R:7:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_ensemble.R:6:3',
'test_pipeop_impute.R:4:3', 'test_pipeop_imputelearner.R:43:3',
'test_pipeop_isomap.R:10:3', 'test_pipeop_kernelpca.R:9:3',
'test_pipeop_learner.R:17:3', 'test_pipeop_info.R:6:3',
'test_pipeop_learnerpicvplus.R:163:3', 'test_pipeop_missind.R:6:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_mutate.R:9:3',
'test_pipeop_nearmiss.R:7:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_ovr.R:9:3', 'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_replicate.R:9:3', 'test_pipeop_rowapply.R:6:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_spatialsign.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_subsample.R:6:3',
'test_pipeop_task_preproc.R:4:3', 'test_pipeop_task_preproc.R:14:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_filter_ensemble.R:294:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all(is.nan(permutation_filter$scores[task$feature_names]))` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_filter_ensemble.R:307:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all.equal(object, expected, check.environment = FALSE, ...)` to be TRUE.
Differences:
`actual` is a character vector ('Mean absolute difference: Inf')
`expected` is a logical vector (TRUE)
Backtrace:
▆
1. └─global expect_equal(combined_scores, variance_scores * weights[["variance"]]) at test_filter_ensemble.R:307:3
2. └─testthat::expect_true(...)
[ FAIL 2 | WARN 0 | SKIP 100 | PASS 13055 ]
Error:
! Test failures.
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.10.0
Check: examples
Result: ERROR
Running examples in ‘mlr3pipelines-Ex.R’ failed
The error most likely occurred in:
> ### Name: mlr_pipeops_nmf
> ### Title: Non-negative Matrix Factorization
> ### Aliases: mlr_pipeops_nmf PipeOpNMF
>
> ### ** Examples
>
> ## Don't show:
> if (mlr3misc::require_namespaces(c("NMF", "MASS"), quietly = TRUE)) withAutoprint({ # examplesIf
+ ## End(Don't show)
+ ## Don't show:
+ # NMF attaches these packages to search path on load, #929
+ lapply(c("package:Biobase", "package:BiocGenerics", "package:generics"), detach, character.only = TRUE)
+ ## End(Don't show)
+ library("mlr3")
+
+ task = tsk("iris")
+ pop = po("nmf")
+
+ task$data()
+ pop$train(list(task))[[1]]$data()
+
+ pop$state
+ ## Don't show:
+ # BiocGenerics overwrites printer for our tables mlr-org/mlr3#1112
+ # Necessary as detaching packages does not remove registered S3 methods
+ suppressWarnings(try(rm("format.list", envir = .BaseNamespaceEnv$.__S3MethodsTable__.), silent = TRUE))
+ ## End(Don't show)
+ ## Don't show:
+ }) # examplesIf
> lapply(c("package:Biobase", "package:BiocGenerics", "package:generics"),
+ detach, character.only = TRUE)
Error in FUN(X[[i]], ...) : invalid 'name' argument
Calls: withAutoprint ... withVisible -> eval -> eval -> lapply -> lapply -> FUN
Execution halted
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [102s/50s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-04 06:11:30.363958: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.36421: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.367224: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.373294: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.383549: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.383687: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.385929: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.391916: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.398534: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.398706: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.403012: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.417523: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.417901: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.422344: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.422445: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.426216: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.438987: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.439229: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.46998: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.470115: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.474321: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.508366: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.515346: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.515501: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.523564: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.604338: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.605511: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.636076: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.636214: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.638479: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.644546: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.651402: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.65159: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.656142: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.670909: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.671308: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.70155: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.70168: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.703958: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.71: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.719181: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.719346: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.723276: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.737968: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.73838: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.755519: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.75566: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.758102: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.764402: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.775262: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.775434: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.77986: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.794963: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.795356: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.822039: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.822186: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.82435: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.830577: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.841156: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.841331: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.845651: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.860642: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.861043: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.876993: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.877117: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.87939: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.885737: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.896521: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.896717: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.901154: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.915972: embedding
> test_pipeop_isomap.R: 2025-12-04 06:11:30.9164: DONE
> test_pipeop_isomap.R: 2025-12-04 06:11:30.937469: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.937614: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.940229: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.946716: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.965453: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.965605: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.967895: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.975447: Classical Scaling
> test_pipeop_isomap.R: 2025-12-04 06:11:30.980845: Isomap START
> test_pipeop_isomap.R: 2025-12-04 06:11:30.980969: constructing knn graph
> test_pipeop_isomap.R: 2025-12-04 06:11:30.983556: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-04 06:11:30.989877: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_textvectorizer.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_pipeop_textvectorizer.R: Use 'as(., "TsparseMatrix")' instead.
> test_pipeop_textvectorizer.R: See help("Deprecated") and help("Matrix-deprecated").
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_colapply.R:9:3', 'test_pipeop_collapsefactors.R:6:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_histbin.R:7:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_nmf.R:6:3', 'test_pipeop_randomprojection.R:6:3',
'test_pipeop_randomresponse.R:5:3', 'test_pipeop_removeconstants.R:6:3',
'test_pipeop_renamecolumns.R:6:3', 'test_pipeop_replicate.R:9:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_rowapply.R:6:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_task_preproc.R:4:3', 'test_pipeop_task_preproc.R:14:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_pipeop_datefeatures.R:7:3'): PipeOpDateFeatures - basic properties ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:7:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_datefeatures.R:17:3'): PipeOpDateFeatures - finds POSIXct column ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:17:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_nmf.R:45:3'): PipeOpNMF - does not modify search path when NMF is not loaded, fix for #929 ──
Error in `detach(package:generics)`: invalid 'name' argument
Backtrace:
▆
1. └─base::detach(package:generics) at test_pipeop_nmf.R:45:3
── Failure ('test_pipeop_nmf.R:73:3'): PipeOpNMF - does not modify search path when NMF is loaded, fix for #929 ──
Expected `all(...)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_pipeop_nmf.R:93:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Expected `all(paste0("package:", c("BiocGenerics", "generics")) %in% search())` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test_pipeop_nmf.R:98:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Error in `FUN(X[[i]], ...)`: invalid 'name' argument
This happened in PipeOp nmf's $train()
Backtrace:
▆
1. ├─op$train(list(tsk("iris"))) at test_pipeop_nmf.R:98:3
2. │ └─mlr3pipelines:::.__PipeOp__train(...)
3. │ ├─base::withCallingHandlers(...)
4. │ └─private$.train(input)
5. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train(...)
6. │ └─private$.train_task(intask)
7. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train_task(...)
8. │ ├─data.table::as.data.table(...)
9. │ └─private$.train_dt(dt, task$levels(cols), task$truth())
10. │ └─mlr3pipelines:::.__PipeOpNMF__.train_dt(...)
11. │ └─mlr3misc::map(to_be_detached, detach, character.only = TRUE)
12. │ └─base::lapply(.x, .f, ...)
13. │ └─base (local) FUN(X[[i]], ...)
14. │ └─base::stop("invalid 'name' argument")
15. └─base::.handleSimpleError(...)
16. └─mlr3pipelines (local) h(simpleError(msg, call))
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-macos-arm64
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [300s/282s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R:
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-03 11:07:51.833212: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:51.833747: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:51.851965: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:51.875105: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:51.943847: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:51.944149: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:51.959827: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:51.991187: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:52.02687: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:52.027315: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:52.044814: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:52.127185: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:52.12829: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:52.160163: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:52.160465: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:52.179488: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:52.246026: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:52.247082: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:52.361108: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:52.361427: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:52.383139: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:52.558282: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:52.615416: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:52.615866: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:52.682347: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:53.058451: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:53.070964: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:53.265285: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:53.265583: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:53.272295: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:53.309166: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:53.347167: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:53.34762: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:53.370829: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:53.440866: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:53.442079: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:53.628842: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:53.629165: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:53.638174: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:53.668917: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:53.724795: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:53.725224: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:53.76581: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:53.851088: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:53.862172: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:53.950832: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:53.951137: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:53.957408: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:54.003843: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:54.063976: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:54.064476: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:54.090464: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:54.166585: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:54.167935: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:54.254555: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:54.255425: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:54.271598: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:54.294041: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:54.347155: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:54.347607: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:54.374787: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:54.436406: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:54.441182: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:54.546554: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:54.546858: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:54.55883: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:54.605103: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:54.708188: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 11:07:54.708611: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:54.729226: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:54.796225: embedding
> test_pipeop_isomap.R: 2025-12-03 11:07:54.800095: DONE
> test_pipeop_isomap.R: 2025-12-03 11:07:54.926737: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:54.927035: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:54.934035: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:54.966612: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:55.063035: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:55.063325: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:55.089087: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:55.128446: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 11:07:55.154241: Isomap START
> test_pipeop_isomap.R: 2025-12-03 11:07:55.154524: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 11:07:55.173937: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 11:07:55.230141: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_randomresponse.R:5:3', 'test_pipeop_removeconstants.R:6:3',
'test_pipeop_renamecolumns.R:6:3', 'test_pipeop_replicate.R:9:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_rowapply.R:6:3', 'test_pipeop_smotenc.R:8:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_task_preproc.R:4:3', 'test_pipeop_task_preproc.R:14:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_pipeop_datefeatures.R:7:3'): PipeOpDateFeatures - basic properties ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:7:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_datefeatures.R:17:3'): PipeOpDateFeatures - finds POSIXct column ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:17:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_nmf.R:45:3'): PipeOpNMF - does not modify search path when NMF is not loaded, fix for #929 ──
Error in `detach(package:generics)`: invalid 'name' argument
Backtrace:
▆
1. └─base::detach(package:generics) at test_pipeop_nmf.R:45:3
── Failure ('test_pipeop_nmf.R:73:3'): PipeOpNMF - does not modify search path when NMF is loaded, fix for #929 ──
Expected `all(...)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_pipeop_nmf.R:93:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Expected `all(paste0("package:", c("BiocGenerics", "generics")) %in% search())` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test_pipeop_nmf.R:98:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Error in `FUN(X[[i]], ...)`: invalid 'name' argument
This happened in PipeOp nmf's $train()
Backtrace:
▆
1. ├─op$train(list(tsk("iris"))) at test_pipeop_nmf.R:98:3
2. │ └─mlr3pipelines:::.__PipeOp__train(...)
3. │ ├─base::withCallingHandlers(...)
4. │ └─private$.train(input)
5. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train(...)
6. │ └─private$.train_task(intask)
7. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train_task(...)
8. │ ├─data.table::as.data.table(...)
9. │ └─private$.train_dt(dt, task$levels(cols), task$truth())
10. │ └─mlr3pipelines:::.__PipeOpNMF__.train_dt(...)
11. │ └─mlr3misc::map(to_be_detached, detach, character.only = TRUE)
12. │ └─base::lapply(.x, .f, ...)
13. │ └─base (local) FUN(X[[i]], ...)
14. │ └─base::stop("invalid 'name' argument")
15. └─base::.handleSimpleError(...)
16. └─mlr3pipelines (local) h(simpleError(msg, call))
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-macos-x86_64
Version: 0.10.0
Check: tests
Result: ERROR
Running 'testthat.R' [259s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
Saving _problems/test_filter_ensemble-294.R
Saving _problems/test_filter_ensemble-307.R
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R:
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-02 02:21:47.97167: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:47.972675: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:47.986222: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:48.008757: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:48.084918: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:48.085541: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:48.095664: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:48.117891: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:48.156726: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:48.157761: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:48.176241: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:48.221923: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:48.223758: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:48.261677: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:48.262236: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:48.278748: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:48.327955: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:48.329808: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:48.435884: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:48.436586: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:48.461631: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:48.58003: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:48.630308: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:48.631269: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:48.680658: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:48.943381: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:48.948686: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:49.183488: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:49.184124: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:49.194384: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:49.212308: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:49.246246: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:49.246879: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:49.259952: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:49.301569: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:49.30333: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:49.507385: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:49.508031: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:49.518482: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:49.536763: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:49.582499: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:49.583251: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:49.59738: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:49.635502: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:49.636652: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:49.729507: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:49.729975: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:49.737395: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:49.758281: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:49.807001: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:49.807663: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:49.823211: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:49.858108: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:49.859368: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:49.948576: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:49.94901: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:49.955625: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:49.970554: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:50.014175: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:50.014808: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:50.034535: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:50.083897: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:50.085836: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:50.178744: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:50.179358: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:50.190645: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:50.21219: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:50.268957: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-02 02:21:50.269652: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:50.289138: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:50.330337: embedding
> test_pipeop_isomap.R: 2025-12-02 02:21:50.331865: DONE
> test_pipeop_isomap.R: 2025-12-02 02:21:50.43722: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:50.43767: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:50.446906: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:50.462215: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:50.578739: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:50.579397: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:50.592043: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:50.614434: Classical Scaling
> test_pipeop_isomap.R: 2025-12-02 02:21:50.663898: Isomap START
> test_pipeop_isomap.R: 2025-12-02 02:21:50.664383: constructing knn graph
> test_pipeop_isomap.R: 2025-12-02 02:21:50.671579: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-02 02:21:50.686897: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 8 | WARN 0 | SKIP 99 | PASS 13004 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_learnercv.R:31:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_nearmiss.R:7:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_replicate.R:9:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_rowapply.R:6:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_task_preproc.R:4:3',
'test_pipeop_task_preproc.R:14:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_filter_ensemble.R:294:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all(is.nan(permutation_filter$scores[task$feature_names]))` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_filter_ensemble.R:307:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all.equal(object, expected, check.environment = FALSE, ...)` to be TRUE.
Differences:
`actual` is a character vector ('Mean relative difference: 0.6862025')
`expected` is a logical vector (TRUE)
Backtrace:
▆
1. └─global expect_equal(combined_scores, variance_scores * weights[["variance"]]) at test_filter_ensemble.R:307:3
2. └─testthat::expect_true(...)
── Error ('test_pipeop_datefeatures.R:7:3'): PipeOpDateFeatures - basic properties ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:7:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_datefeatures.R:17:3'): PipeOpDateFeatures - finds POSIXct column ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:17:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_nmf.R:45:3'): PipeOpNMF - does not modify search path when NMF is not loaded, fix for #929 ──
Error in `detach(package:generics)`: invalid 'name' argument
Backtrace:
▆
1. └─base::detach(package:generics) at test_pipeop_nmf.R:45:3
── Failure ('test_pipeop_nmf.R:73:3'): PipeOpNMF - does not modify search path when NMF is loaded, fix for #929 ──
Expected `all(...)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_pipeop_nmf.R:93:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Expected `all(paste0("package:", c("BiocGenerics", "generics")) %in% search())` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test_pipeop_nmf.R:98:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Error in `FUN(X[[i]], ...)`: invalid 'name' argument
This happened in PipeOp nmf's $train()
Backtrace:
▆
1. ├─op$train(list(tsk("iris"))) at test_pipeop_nmf.R:98:3
2. │ └─mlr3pipelines:::.__PipeOp__train(...)
3. │ ├─base::withCallingHandlers(...)
4. │ └─private$.train(input)
5. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train(...)
6. │ └─private$.train_task(intask)
7. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train_task(...)
8. │ ├─data.table::as.data.table(...)
9. │ └─private$.train_dt(dt, task$levels(cols), task$truth())
10. │ └─mlr3pipelines:::.__PipeOpNMF__.train_dt(...)
11. │ └─mlr3misc::map(to_be_detached, detach, character.only = TRUE)
12. │ └─base::lapply(.x, .f, ...)
13. │ └─base (local) FUN(X[[i]], ...)
14. │ └─base::stop("invalid 'name' argument")
15. └─base::.handleSimpleError(...)
16. └─mlr3pipelines (local) h(simpleError(msg, call))
[ FAIL 8 | WARN 0 | SKIP 99 | PASS 13004 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-windows-x86_64