Last updated on 2025-12-01 10:52:03 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 38.78 | 774.05 | 812.83 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 23.85 | 495.97 | 519.82 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.10.0 | 79.00 | 1146.40 | 1225.40 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.10.0 | 161.00 | 1151.77 | 1312.77 | OK | |
| r-devel-windows-x86_64 | 0.10.0 | 44.00 | 529.00 | 573.00 | 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 | 121.00 | 131.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.10.0 | 50.00 | 526.00 | 576.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 51.00 | 662.00 | 713.00 | 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’ [107s/52s]
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: [[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: 2025-12-01 14:28:35.913028: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:35.913302: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:35.916279: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:35.922357: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:35.932451: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:35.932617: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:35.935099: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:35.940983: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:35.94828: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:35.948514: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:35.953322: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:35.968707: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:35.969207: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:35.974601: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:35.974739: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:35.979224: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:35.995277: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:35.995795: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:36.018864: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.019016: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.030832: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.065097: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.078405: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.078728: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.087554: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.165648: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:36.166824: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:36.215168: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.21534: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.217638: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.223702: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.23048: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.230671: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.234997: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.250011: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:36.250539: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:36.278936: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.279085: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.281517: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.287483: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.298514: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.298712: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.309411: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.325223: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:36.325746: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:36.34903: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.349176: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.351354: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.357425: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.368266: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.368504: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.373515: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.388669: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:36.389122: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:36.40619: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.40635: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.408713: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.452471: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.471665: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.471965: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.476993: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.492534: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:36.493066: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:36.516102: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.516267: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.518669: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.525197: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.536614: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.536793: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.541545: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.556839: embedding
> test_pipeop_isomap.R: 2025-12-01 14:28:36.557336: DONE
> test_pipeop_isomap.R: 2025-12-01 14:28:36.577619: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.57777: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.586721: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.592857: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.618076: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.618292: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.620688: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.626829: Classical Scaling
> test_pipeop_isomap.R: 2025-12-01 14:28:36.632306: Isomap START
> test_pipeop_isomap.R: 2025-12-01 14:28:36.632432: constructing knn graph
> test_pipeop_isomap.R: 2025-12-01 14:28:36.634774: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-01 14:28:36.640831: 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_classweights.R:10:3', 'test_pipeop_boxcox.R:7:3',
'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_ensemble.R:6:3',
'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_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_nmf.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-arm64
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [305s/261s]
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: [[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: 2025-11-30 17:24:04.597372: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:04.605854: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:04.615141: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:04.642594: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:04.688606: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:04.688905: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:04.700351: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:04.72401: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:04.751693: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:04.75212: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:04.77239: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:04.825468: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:04.826547: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:04.845089: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:04.845464: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:04.867854: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:04.91557: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:04.916728: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:05.001344: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:05.001669: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:05.023678: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:05.186271: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:05.240072: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:05.240532: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:05.307185: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:05.608249: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:05.613316: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:05.789089: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:05.789366: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:05.806981: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:05.856043: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:05.881147: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:05.881577: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:05.906513: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:05.977319: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:05.978545: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:06.127091: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:06.127379: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:06.143937: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:06.175114: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:06.228323: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:06.228789: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:06.245437: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:06.30916: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:06.310658: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:06.396445: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:06.396749: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:06.409295: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:06.441355: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:06.493091: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:06.496315: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:06.526019: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:06.592322: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:06.594713: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:06.680589: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:06.680902: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:06.695649: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:06.719564: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:06.766511: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:06.766977: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:06.806588: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:06.872158: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:06.873321: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:06.948935: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:06.949242: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:06.968768: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:07.004658: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:07.060918: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-30 17:24:07.061367: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:07.085713: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:07.158475: embedding
> test_pipeop_isomap.R: 2025-11-30 17:24:07.159638: DONE
> test_pipeop_isomap.R: 2025-11-30 17:24:07.268808: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:07.269144: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:07.275995: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:07.304869: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:07.384178: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:07.384467: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:07.401119: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:07.421015: Classical Scaling
> test_pipeop_isomap.R: 2025-11-30 17:24:07.446888: Isomap START
> test_pipeop_isomap.R: 2025-11-30 17:24:07.447179: constructing knn graph
> test_pipeop_isomap.R: 2025-11-30 17:24:07.453769: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-30 17:24:07.481719: 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_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_encodepl.R:5:3', 'test_pipeop_encodepl.R:72:3',
'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_randomresponse.R:5:3',
'test_pipeop_nmf.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_removeconstants.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_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 ════════════════════════════════════════════════════════════════
── 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' [281s]
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: [[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: 2025-11-26 13:50:45.695907: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:45.696884: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:45.710179: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:45.732491: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:45.807552: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:45.808173: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:45.818855: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:45.842664: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:45.884071: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:45.885044: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:45.907652: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:45.951247: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:45.952517: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:45.980858: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:45.981483: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:46.002677: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:46.049789: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:46.051698: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:46.181007: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:46.181645: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:46.205326: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:46.3231: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:46.371513: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:46.372496: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:46.418498: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:46.653856: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:46.659324: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:46.880361: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:46.880998: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:46.891429: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:46.913862: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:46.95913: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:46.960022: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:46.979441: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:47.030732: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:47.032393: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:47.231011: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:47.231767: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:47.243887: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:47.267746: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:47.332129: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:47.333056: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:47.353214: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:47.403336: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:47.404976: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:47.512576: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:47.513202: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:47.524712: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:47.547002: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:47.614327: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:47.615233: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:47.638453: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:47.690438: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:47.692148: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:47.827575: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:47.828344: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:47.839758: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:47.859716: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:47.931758: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:47.932666: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:47.952211: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:48.002564: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:48.004168: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:48.113459: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:48.114096: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:48.121974: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:48.142294: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:48.207086: L-Isomap embed START
> test_pipeop_isomap.R: 2025-11-26 13:50:48.208088: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:48.227983: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:48.279734: embedding
> test_pipeop_isomap.R: 2025-11-26 13:50:48.281369: DONE
> test_pipeop_isomap.R: 2025-11-26 13:50:48.411021: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:48.411725: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:48.422387: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:48.446389: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:48.54226: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:48.54294: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:48.553976: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:48.576866: Classical Scaling
> test_pipeop_isomap.R: 2025-11-26 13:50:48.607983: Isomap START
> test_pipeop_isomap.R: 2025-11-26 13:50:48.608448: constructing knn graph
> test_pipeop_isomap.R: 2025-11-26 13:50:48.636175: calculating geodesic distances
> test_pipeop_isomap.R: 2025-11-26 13:50:48.658338: 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_learnercv.R:31:3',
'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_nmf.R:6:3', 'test_pipeop_select.R:9:3',
'test_pipeop_smote.R:10:3', '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_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 ════════════════════════════════════════════════════════════════
── 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-windows-x86_64