Last updated on 2026-01-12 03:52:32 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 40.20 | 814.95 | 855.15 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 23.82 | 552.14 | 575.96 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.10.0 | 71.00 | 1391.17 | 1462.17 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.10.0 | 64.00 | 1321.51 | 1385.51 | OK | |
| r-devel-windows-x86_64 | 0.10.0 | 37.00 | 581.00 | 618.00 | OK | |
| r-patched-linux-x86_64 | 0.10.0 | 50.83 | 736.83 | 787.66 | OK | |
| r-release-linux-x86_64 | 0.10.0 | 38.01 | 740.60 | 778.61 | OK | |
| r-release-macos-arm64 | 0.10.0 | OK | ||||
| r-release-macos-x86_64 | 0.10.0 | 26.00 | 542.00 | 568.00 | OK | |
| r-release-windows-x86_64 | 0.10.0 | 37.00 | 540.00 | 577.00 | OK | |
| r-oldrel-macos-arm64 | 0.10.0 | 8.00 | 118.00 | 126.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.10.0 | 25.00 | 730.00 | 755.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 53.00 | 618.00 | 671.00 | ERROR |
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’ [106s/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.
Saving _problems/test_filter_ensemble-294.R
Saving _problems/test_filter_ensemble-307.R
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [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: 2026-01-12 14:38:07.751182: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:07.751468: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:07.754651: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:07.760771: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:07.772061: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:07.772196: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:07.774691: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:07.780856: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:07.788032: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:07.788208: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:07.792829: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:07.807876: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:07.808277: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:07.814664: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:07.814798: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:07.81931: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:07.8342: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:07.834633: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:07.858847: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:07.858981: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:07.869926: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:07.904389: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:07.912816: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:07.912998: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:07.92176: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.000201: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:08.001209: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:08.037331: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.037542: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.040192: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.046236: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:08.062315: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.062559: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.0672: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.082408: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:08.082842: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:08.117384: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.117534: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.119913: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.12597: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:08.137536: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.137717: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.142241: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.157559: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:08.157932: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:08.176009: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.176134: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.178508: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.184821: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:08.202755: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.202943: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.207394: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.223524: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:08.223969: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:08.242694: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.242813: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.245465: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.251862: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:08.264848: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.265034: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.269993: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.285561: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:08.285951: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:08.304443: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.304573: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.306814: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.312727: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:08.33007: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.330258: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.334596: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.349955: embedding
> test_pipeop_isomap.R: 2026-01-12 14:38:08.350357: DONE
> test_pipeop_isomap.R: 2026-01-12 14:38:08.370532: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.370666: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.372978: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.379164: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:08.397582: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.397703: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.400098: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.406032: Classical Scaling
> test_pipeop_isomap.R: 2026-01-12 14:38:08.411438: Isomap START
> test_pipeop_isomap.R: 2026-01-12 14:38:08.411535: constructing knn graph
> test_pipeop_isomap.R: 2026-01-12 14:38:08.413553: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-12 14:38:08.419633: 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 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_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_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 ════════════════════════════════════════════════════════════════
── 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: 0.5089424')
`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-macos-arm64
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [324s/437s]
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: 2026-01-11 20:34:23.409996: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:23.410543: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:23.438834: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:23.468688: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:23.564439: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:23.564783: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:23.588673: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:23.619648: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:23.672037: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:23.672479: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:23.831039: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:23.930878: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:23.932104: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:23.982556: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:23.98286: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:24.016685: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:24.114446: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:24.115525: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:24.293285: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:24.293596: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:25.058407: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:25.332724: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:25.393491: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:25.418221: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:25.490324: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:26.003078: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:26.00689: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:26.297018: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:26.297327: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:26.304396: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:26.337473: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:26.405178: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:26.405804: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:26.454204: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:26.556379: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:26.557611: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:26.838228: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:26.838525: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:26.902135: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:27.005685: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:27.111879: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:27.112341: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:27.15686: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:27.268611: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:27.270868: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:27.40101: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:27.401339: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:27.426156: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:27.474687: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:27.567105: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:27.567542: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:27.617488: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:27.70471: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:27.722134: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:27.860679: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:27.860987: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:27.88681: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:27.934944: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:28.016162: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:28.0166: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:28.069862: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:28.177014: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:28.178165: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:28.348314: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:28.362046: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:28.368989: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:28.417654: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:28.501544: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-11 20:34:28.501977: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:28.547389: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:28.664451: embedding
> test_pipeop_isomap.R: 2026-01-11 20:34:28.665599: DONE
> test_pipeop_isomap.R: 2026-01-11 20:34:28.826813: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:28.827115: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:28.847064: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:28.878814: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:29.044111: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:29.044406: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:29.067271: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:29.098149: Classical Scaling
> test_pipeop_isomap.R: 2026-01-11 20:34:29.148787: Isomap START
> test_pipeop_isomap.R: 2026-01-11 20:34:29.149076: constructing knn graph
> test_pipeop_isomap.R: 2026-01-11 20:34:29.182069: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-11 20:34:29.252835: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_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_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_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' [279s]
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:
> 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: 2026-01-05 17:10:18.000803: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:18.001822: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:18.016234: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:18.038918: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:18.114544: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:18.115168: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:18.126832: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:18.14891: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:18.189564: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:18.190254: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:18.294737: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:18.335578: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:18.336862: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:18.38209: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:18.382775: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:18.403685: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:18.44051: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:18.441906: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:18.562249: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:18.562857: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:18.585138: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:18.690194: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:18.739394: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:18.740079: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:18.779494: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:18.980606: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:18.985685: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:19.204969: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:19.20559: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:19.215899: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:19.236987: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:19.289005: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:19.289876: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:19.307619: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:19.353702: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:19.355303: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:19.511482: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:19.511936: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:19.51863: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:19.533563: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:19.595101: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:19.596039: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:19.614963: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:19.666046: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:19.667642: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:19.781182: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:19.781789: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:19.799444: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:19.815658: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:19.881228: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:19.882259: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:19.900811: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:19.937499: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:19.9387: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:20.04102: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:20.04162: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:20.067441: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:20.089866: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:20.169186: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:20.170107: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:20.186432: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:20.230027: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:20.231546: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:20.34159: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:20.342098: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:20.34929: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:20.365845: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:20.41623: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-05 17:10:20.416922: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:20.442262: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:20.491627: embedding
> test_pipeop_isomap.R: 2026-01-05 17:10:20.493363: DONE
> test_pipeop_isomap.R: 2026-01-05 17:10:20.62114: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:20.621785: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:20.631884: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:20.649447: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:20.785893: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:20.786638: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:20.798355: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:20.819076: Classical Scaling
> test_pipeop_isomap.R: 2026-01-05 17:10:20.852864: Isomap START
> test_pipeop_isomap.R: 2026-01-05 17:10:20.85349: constructing knn graph
> test_pipeop_isomap.R: 2026-01-05 17:10:20.864854: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-05 17:10:20.897752: 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_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_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_nmf.R:6:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_rowapply.R:6:3',
'test_pipeop_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_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-windows-x86_64