Last updated on 2026-01-01 09:50:16 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 38.84 | 808.84 | 847.68 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 24.58 | 527.47 | 552.05 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.10.0 | 65.00 | 1323.65 | 1388.65 | 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 | 38.00 | 583.00 | 621.00 | OK | |
| r-patched-linux-x86_64 | 0.10.0 | 54.11 | 745.73 | 799.84 | OK | |
| r-release-linux-x86_64 | 0.10.0 | 37.46 | 743.79 | 781.25 | 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 | 127.00 | 135.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.10.0 | 25.00 | 741.00 | 766.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 52.00 | 688.00 | 740.00 | 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’ [109s/53s]
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: 2026-01-01 20:24:11.581048: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.581339: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.584476: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.590526: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:11.601987: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.602116: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.6044: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.61046: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:11.617565: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.617729: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.630937: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.646023: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:11.64639: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:11.652415: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.652535: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.65676: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.671386: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:11.671727: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:11.690589: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.690703: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.695271: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.728369: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:11.736832: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.737004: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.777361: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.855158: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:11.856414: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:11.891451: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.89158: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.893845: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.899861: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:11.906834: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.906995: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.911451: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.926104: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:11.926428: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:11.957489: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.957623: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.959903: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:11.96592: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:11.977054: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:11.977241: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:11.986697: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.002157: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:12.002596: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:12.023825: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.023961: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.026162: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.032379: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:12.043715: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.043898: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.048311: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.062847: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:12.063216: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:12.078269: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.078372: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.080471: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.086419: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:12.098399: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.098603: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.102792: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.117146: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:12.117484: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:12.134847: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.134962: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.142593: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.148569: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:12.161431: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.16158: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.166061: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.180873: embedding
> test_pipeop_isomap.R: 2026-01-01 20:24:12.181296: DONE
> test_pipeop_isomap.R: 2026-01-01 20:24:12.20183: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.201982: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.20429: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.210281: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:12.228602: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.228726: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.230963: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.236956: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 20:24:12.242755: Isomap START
> test_pipeop_isomap.R: 2026-01-01 20:24:12.242884: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 20:24:12.245063: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 20:24:12.251154: 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_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_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_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_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_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 ════════════════════════════════════════════════════════════════
── 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: 0.375098')
`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’ [327s/433s]
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:
> 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]
> test_pipeop_blsmote.R: "Borderline-SMOTE done"
> test_pipeop_blsmote.R:
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2026-01-01 02:43:31.993351: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:31.993886: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:32.025938: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:32.079456: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:32.200778: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:32.201083: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:32.22199: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:32.281521: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:32.339936: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:32.340591: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:32.375258: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:32.513831: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:32.515023: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:32.578316: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:32.578649: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:32.611037: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:32.738175: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:32.739294: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:33.005374: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:33.005659: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:33.057343: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:33.322788: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:33.410148: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:33.41058: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:33.483376: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:34.100514: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:34.107422: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:34.612094: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:34.61239: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:34.619138: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:34.675844: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:34.734722: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:34.735145: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:34.78981: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:34.900164: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:34.901411: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:35.29787: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:35.298176: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:35.330307: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:35.383398: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:35.467613: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:35.468078: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:35.52547: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:35.657449: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:35.658791: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:35.844627: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:35.844924: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:35.851604: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:35.914765: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:36.026767: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:36.027197: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:36.05248: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:36.170819: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:36.171995: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:36.33332: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:36.333625: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:36.347015: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:36.383672: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:36.482763: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:36.483203: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:36.518547: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:36.627935: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:36.629251: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:36.832611: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:36.832922: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:36.840017: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:36.896711: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:36.994025: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-01 02:43:36.994481: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:37.02577: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:37.15675: embedding
> test_pipeop_isomap.R: 2026-01-01 02:43:37.157883: DONE
> test_pipeop_isomap.R: 2026-01-01 02:43:37.383709: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:37.384006: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:37.390785: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:37.437182: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:37.573886: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:37.574181: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:37.632445: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:37.66074: Classical Scaling
> test_pipeop_isomap.R: 2026-01-01 02:43:37.719735: Isomap START
> test_pipeop_isomap.R: 2026-01-01 02:43:37.720241: constructing knn graph
> test_pipeop_isomap.R: 2026-01-01 02:43:37.745073: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-01 02:43:37.802507: 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_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_nmf.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' [298s]
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.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R:
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-29 23:58:08.39592: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.397001: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.415444: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.432775: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:08.48134: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.482003: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.493394: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.509237: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:08.541266: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.541932: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.557638: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.59562: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:08.597146: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:08.626392: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.626867: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.642581: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.696343: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:08.716096: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:08.84862: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.84923: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.870996: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.986946: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:09.040497: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.041379: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.080702: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.286405: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:09.29159: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:09.523103: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.523722: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.534337: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.557069: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:09.627172: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.62803: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.650044: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.694663: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:09.695734: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:09.91991: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.920563: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.932632: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.954441: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.031702: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.032621: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.055415: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.105656: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.107462: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:10.232661: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.233306: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.245937: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.273066: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.348642: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.349526: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.388423: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.437995: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.439157: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:10.560174: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.560797: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.571369: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.593617: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.668105: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.669004: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.687689: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.737882: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.739425: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:10.829189: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.829685: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.837691: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.858411: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.933407: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.934289: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.952716: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.995014: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.996929: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:11.142308: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:11.143: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:11.170818: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:11.194719: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:11.315518: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:11.316138: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:11.328614: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:11.351195: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:11.387378: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:11.38798: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:11.400866: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:11.419185: 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_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', '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_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_rowapply.R:6:3', 'test_pipeop_scalemaxabs.R:6:3',
'test_pipeop_scalerange.R:7:3', 'test_pipeop_select.R:9:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_task_preproc.R:4:3',
'test_pipeop_task_preproc.R:14:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── 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