Last updated on 2025-12-08 17:49:48 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 | 25.18 | 499.64 | 524.82 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.10.0 | 198.00 | 1148.48 | 1346.48 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.10.0 | 176.00 | 1136.63 | 1312.63 | OK | |
| r-devel-windows-x86_64 | 0.10.0 | 37.00 | 557.00 | 594.00 | OK | |
| r-patched-linux-x86_64 | 0.10.0 | 52.79 | 696.73 | 749.52 | OK | |
| r-release-linux-x86_64 | 0.10.0 | 37.45 | 708.26 | 745.71 | OK | |
| 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 | 37.00 | 525.00 | 562.00 | OK | |
| r-oldrel-macos-arm64 | 0.10.0 | ERROR | ||||
| r-oldrel-macos-x86_64 | 0.10.0 | 39.00 | 523.00 | 562.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 49.00 | 639.00 | 688.00 | ERROR |
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [13m/14m]
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:
> 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:
> 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:
> 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:
> 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:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1]
> test_pipeop_blsmote.R: "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1]
> test_pipeop_blsmote.R: "Borderline-SMOTE done"
> test_pipeop_isomap.R: 2025-12-03 20:30:52.178844: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:52.188225: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:52.241396: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:52.3382: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:52.63962: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:52.640393: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:52.673667: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:52.73436: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:52.852686: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:52.853773: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:52.93476: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:53.094272: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:53.09641: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:53.223601: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:53.232458: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:53.319694: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:53.494901: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:53.503531: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:53.847005: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:53.847743: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:53.937428: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:54.430068: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:54.57678: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:54.57794: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:54.807348: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:56.204557: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:56.226136: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:57.125875: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:57.126669: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:57.162276: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:57.230187: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:57.375948: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:57.376974: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:57.452791: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:57.696058: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:57.709529: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:58.093506: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:58.094303: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:58.113741: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:58.145293: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:58.236962: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:58.240657: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:58.34573: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:58.412291: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:58.416551: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:58.74213: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:58.742924: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:58.770496: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:58.850435: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:59.035268: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:59.038904: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:59.095923: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:59.262424: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:59.271001: DONE
> test_pipeop_isomap.R: 2025-12-03 20:31:00.081115: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:00.087914: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:00.112966: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:00.195289: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:00.43192: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:31:00.433025: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:00.511669: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:00.681612: embedding
> test_pipeop_isomap.R: 2025-12-03 20:31:00.688634: DONE
> test_pipeop_isomap.R: 2025-12-03 20:31:01.035443: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:01.036204: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:01.06221: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:01.148698: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:01.372226: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:31:01.373302: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:01.446755: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:01.601827: embedding
> test_pipeop_isomap.R: 2025-12-03 20:31:01.609045: DONE
> test_pipeop_isomap.R: 2025-12-03 20:31:01.889582: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:01.890339: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:01.978638: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:02.013733: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:02.193271: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:02.19405: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:02.224538: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:02.290909: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:02.374123: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:02.381299: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:02.410511: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:02.470767: 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:
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.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:
> 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:
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R:
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.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_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_datefeatures.R:10:3', '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_learnercv.R:31:3',
'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 relative difference: 0.9110593')
`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-devel-linux-x86_64-fedora-clang
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’ [101s/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: [[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: 2025-12-09 02:05:51.028003: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.028228: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.031394: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.037692: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.047089: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.0472: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.049518: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.05544: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.061552: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.061718: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.066416: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.081405: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.081835: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.087027: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.08717: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.091678: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.106246: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.106605: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.12416: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.124276: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.128436: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.161516: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.170654: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.170889: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.179611: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.256541: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.257484: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.294717: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.294859: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.297116: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.303146: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.309826: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.310006: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.314235: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.328256: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.328565: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.355791: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.355912: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.358203: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.364683: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.375428: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.375626: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.380083: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.394827: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.395181: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.409983: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.410095: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.412278: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.418101: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.427699: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.427852: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.432055: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.446294: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.446612: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.462076: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.462199: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.470037: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.476073: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.486349: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.486518: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.490717: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.50508: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.505418: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.521073: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.5212: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.523469: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.529415: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.540039: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.540231: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.544717: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.559979: embedding
> test_pipeop_isomap.R: 2025-12-09 02:05:51.560376: DONE
> test_pipeop_isomap.R: 2025-12-09 02:05:51.577824: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.577933: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.579993: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.585254: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.59904: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.599216: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.601699: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.607917: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 02:05:51.61315: Isomap START
> test_pipeop_isomap.R: 2025-12-09 02:05:51.613265: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 02:05:51.615581: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 02:05:51.621737: 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_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_ensemble.R:6:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_imputelearner.R:43:3',
'test_pipeop_impute.R:4:3', '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_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_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’ [303s/278s]
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: 2025-12-08 07:54:49.083323: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:49.083865: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:49.102422: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:49.125382: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:49.190228: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:49.190528: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:49.197587: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:49.227061: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:49.266469: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:49.266894: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:49.284139: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:49.354659: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:49.355893: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:49.374723: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:49.37503: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:49.402811: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:49.468053: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:49.469121: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:49.572848: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:49.573196: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:49.596362: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:49.761398: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:49.808599: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:49.809504: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:49.856872: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:50.29221: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:50.296164: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:50.49531: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:50.495612: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:50.504527: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:50.530416: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:50.579275: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:50.579696: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:50.608869: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:50.68242: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:50.684589: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:50.839716: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:50.839994: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:50.881165: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:50.913768: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:50.984105: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:50.984648: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:51.036195: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:51.102281: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:51.111428: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:51.219492: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:51.219782: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:51.231732: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:51.283868: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:51.357683: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:51.358128: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:51.382465: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:51.456739: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:51.457908: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:51.591895: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:51.592171: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:51.607255: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:51.641508: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:51.693739: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:51.694187: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:51.719513: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:51.781938: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:51.783999: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:51.885564: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:51.885863: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:51.892623: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:51.929259: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:51.987277: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 07:54:51.987727: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:52.027188: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:52.104802: embedding
> test_pipeop_isomap.R: 2025-12-08 07:54:52.106339: DONE
> test_pipeop_isomap.R: 2025-12-08 07:54:52.217195: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:52.217503: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:52.224374: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:52.256955: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:52.348228: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:52.34852: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:52.363997: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:52.398869: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 07:54:52.423131: Isomap START
> test_pipeop_isomap.R: 2025-12-08 07:54:52.424419: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 07:54:52.478298: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 07:54:52.512154: 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_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_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_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' [276s]
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:
> 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:
> 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: 2025-12-05 09:10:17.269554: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.270535: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.285775: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.310338: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:17.379008: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.37962: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.390467: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.407973: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:17.451409: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.452468: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.471692: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.509631: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:17.511396: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:17.552369: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.553087: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.588155: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.635238: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:17.63674: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:17.768119: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.768798: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.789241: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.89746: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:17.945532: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.946664: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.006027: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.245565: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:18.251105: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:18.476012: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:18.476689: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.487999: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.509757: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:18.6432: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:18.64429: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.666182: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.714406: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:18.716113: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:18.915012: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:18.915526: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.923468: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.943846: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.005978: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.006642: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.029213: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.08091: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.082849: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:19.211741: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.212383: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.222509: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.244268: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.314327: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.315242: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.333067: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.372758: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.3745: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:19.48358: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.484277: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.496862: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.519529: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.591323: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.592315: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.626329: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.676073: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.67789: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:19.769006: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.769498: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.780428: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.802959: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.87081: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.871714: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.891065: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.941783: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.943964: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:20.667826: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:20.668456: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:20.679931: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:20.697664: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:20.822275: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:20.823095: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:20.835371: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:20.858724: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:20.898576: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:20.89935: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:20.911428: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:20.934781: 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_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_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_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_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: 0.7240711')
`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