Last updated on 2025-12-30 03:50:25 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 33.58 | 813.83 | 847.41 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 24.16 | 539.38 | 563.54 | 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 | 52.24 | 701.38 | 753.62 | 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 | 40.00 | 544.00 | 584.00 | 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 | 737.00 | 762.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 45.00 | 627.00 | 672.00 | 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’ [108s/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: 2025-12-30 12:34:08.064078: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.064396: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.067923: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.074041: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.085962: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.086094: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.088481: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.094463: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.102214: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.102372: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.107345: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.121942: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.122304: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.128181: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.128301: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.141454: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.156895: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.157305: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.177404: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.177539: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.181824: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.215041: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.224557: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.224773: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.233424: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.309412: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.310823: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.352878: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.353016: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.355203: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.361222: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.368569: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.368745: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.372875: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.387838: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.388227: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.420855: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.420998: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.423436: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.42963: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.441686: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.441855: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.446179: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.460822: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.466189: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.484093: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.484218: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.48632: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.492268: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.503189: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.503367: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.507652: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.522245: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.522615: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.54029: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.540423: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.542747: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.54877: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.559899: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.560071: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.56444: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.578953: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.579317: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.60338: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.603501: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.605633: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.611785: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.623149: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.623325: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.62765: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.642537: embedding
> test_pipeop_isomap.R: 2025-12-30 12:34:08.642958: DONE
> test_pipeop_isomap.R: 2025-12-30 12:34:08.664709: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.664843: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.66701: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.672783: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.691828: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.691982: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.694351: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.700277: Classical Scaling
> test_pipeop_isomap.R: 2025-12-30 12:34:08.711382: Isomap START
> test_pipeop_isomap.R: 2025-12-30 12:34:08.711495: constructing knn graph
> test_pipeop_isomap.R: 2025-12-30 12:34:08.713591: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-30 12:34:08.720086: 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_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_histbin.R:7:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_imputelearner.R:43:3',
'test_pipeop_impute.R:4:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_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_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: 0.64568')
`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/428s]
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:
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1]
> test_pipeop_blsmote.R: "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-29 20:45:24.743355: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:24.743925: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:24.753673: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:24.845171: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:24.96851: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:24.968805: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:24.981962: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:25.02153: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:25.082968: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:25.10261: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:25.134247: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:25.24843: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:25.249581: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:25.308961: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:25.309344: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:25.344222: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:25.461527: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:25.507203: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:25.694613: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:25.694901: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:25.756017: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:26.01881: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:26.098818: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:26.099268: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:26.146317: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:26.751969: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:26.764769: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:27.260883: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:27.261189: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:27.287416: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:27.338449: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:27.396974: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:27.397389: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:27.45915: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:27.528384: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:27.564001: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:27.858581: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:27.858873: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:27.871003: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:27.914887: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:28.015644: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:28.016104: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:28.069594: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:28.175033: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:28.176098: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:28.336193: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:28.336491: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:28.343562: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:28.398212: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:28.499167: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:28.499587: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:28.533314: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:28.657466: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:28.658563: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:28.842271: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:28.842558: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:28.849521: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:28.938856: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:29.053671: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:29.054108: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:29.092014: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:29.229611: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:29.231953: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:29.473044: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:29.473357: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:29.506979: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:29.561799: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:29.659471: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 20:45:29.659897: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:29.69966: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:29.790033: embedding
> test_pipeop_isomap.R: 2025-12-29 20:45:29.791185: DONE
> test_pipeop_isomap.R: 2025-12-29 20:45:29.984463: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:30.003266: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:30.010128: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:30.061344: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:30.234882: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:30.235167: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:30.242175: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:30.315374: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 20:45:30.364339: Isomap START
> test_pipeop_isomap.R: 2025-12-29 20:45:30.364635: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 20:45:30.376266: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 20:45:30.44333: 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' [281s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R:
> 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 16:43:04.894884: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:04.895979: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:04.911432: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:04.929833: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:04.977726: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:04.978196: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:04.988201: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:05.009231: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:05.039689: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:05.040373: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:05.057375: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:05.101656: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:05.10309: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:05.143283: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:05.144043: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:05.167244: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:05.217926: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:05.219741: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:05.350116: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:05.350722: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:05.376445: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:05.477853: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:05.558452: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:05.559253: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:05.600312: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:05.843249: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:05.848632: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:06.063926: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:06.064509: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:06.075945: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:06.094892: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:06.145816: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:06.146667: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:06.167721: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:06.211328: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:06.212719: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:06.424735: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:06.425361: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:06.452273: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:06.47401: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:06.550731: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:06.55163: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:06.572063: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:06.621089: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:06.622483: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:06.745437: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:06.746171: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:06.756264: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:06.778414: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:06.860723: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:06.861638: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:06.882226: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:06.947569: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:06.949285: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:07.069397: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:07.070136: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:07.081528: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:07.103276: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:07.172543: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:07.173476: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:07.191375: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:07.231745: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:07.233122: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:07.357455: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:07.357913: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:07.366637: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:07.389203: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:07.457666: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 16:43:07.458923: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:07.48235: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:07.518177: embedding
> test_pipeop_isomap.R: 2025-12-29 16:43:07.519997: DONE
> test_pipeop_isomap.R: 2025-12-29 16:43:07.652329: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:07.65276: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:07.662851: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:07.686006: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:07.790137: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:07.790768: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:07.79911: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:07.81472: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 16:43:07.852248: Isomap START
> test_pipeop_isomap.R: 2025-12-29 16:43:07.852877: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 16:43:07.865244: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 16:43:07.888866: 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_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_learnercv.R:31:3', 'test_pipeop_multiplicityexply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_multiplicityimply.R:9:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_replicate.R:9:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_rowapply.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