Last updated on 2025-12-11 07:49:44 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 38.89 | 764.75 | 803.64 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 22.32 | 500.31 | 522.63 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.10.0 | 212.00 | 1170.21 | 1382.21 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.10.0 | 269.00 | 1093.39 | 1362.39 | OK | |
| r-devel-windows-x86_64 | 0.10.0 | 38.00 | 554.00 | 592.00 | OK | |
| r-patched-linux-x86_64 | 0.10.0 | 54.55 | 699.28 | 753.83 | OK | |
| r-release-linux-x86_64 | 0.10.0 | 37.45 | 708.26 | 745.71 | OK | |
| r-release-macos-arm64 | 0.10.0 | OK | ||||
| r-release-macos-x86_64 | 0.10.0 | 37.00 | 531.00 | 568.00 | OK | |
| r-release-windows-x86_64 | 0.10.0 | 37.00 | 525.00 | 562.00 | OK | |
| r-oldrel-macos-arm64 | 0.10.0 | 9.00 | 120.00 | 129.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.10.0 | 69.00 | 507.00 | 576.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 52.00 | 638.00 | 690.00 | 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’ [101s/49s]
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: 2025-12-11 15:53:26.651655: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.652012: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.654942: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:26.66041: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:26.669822: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.669962: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.67244: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:26.678581: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:26.727529: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.727725: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.732659: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:26.749557: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:26.750286: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:26.756046: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.756212: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.760727: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:26.775672: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:26.776105: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:26.796862: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.797005: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.801549: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:26.836405: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:26.851576: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.85178: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.859977: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:26.937819: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:26.939249: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:26.968971: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.969145: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.978135: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:26.984307: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:26.992317: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:26.992498: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:26.996899: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.011937: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:27.012403: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:27.041856: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.041995: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.044225: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.050282: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:27.060552: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.060733: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.070623: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.085438: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:27.08587: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:27.102882: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.103002: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.105167: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.111335: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:27.122368: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.12255: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.127108: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.142124: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:27.142514: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:27.159149: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.159282: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.368546: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.374961: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:27.385648: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.385838: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.390249: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.405163: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:27.405668: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:27.421769: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.421901: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.424008: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.430034: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:27.440976: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.441202: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.446125: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.460956: embedding
> test_pipeop_isomap.R: 2025-12-11 15:53:27.461369: DONE
> test_pipeop_isomap.R: 2025-12-11 15:53:27.479732: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.479872: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.482185: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.488188: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:27.506122: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.506301: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.508693: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.514817: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 15:53:27.520521: Isomap START
> test_pipeop_isomap.R: 2025-12-11 15:53:27.520642: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 15:53:27.522948: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 15:53:27.529097: 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_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_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_histbin.R:7:3', 'test_pipeop_ensemble.R:6:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_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: 1.2157')
`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’ [305s/268s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-11 00:04:46.450136: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:46.451887: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:46.473002: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:46.497127: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:46.559883: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:46.560195: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:46.573724: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:46.609267: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:46.633449: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:46.641756: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:46.659828: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:46.714322: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:46.71542: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:46.73428: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:46.734578: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:46.756666: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:46.808465: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:46.8097: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:46.914816: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:46.915123: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:46.934179: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:47.090427: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:47.139574: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:47.140032: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:47.20163: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:47.526563: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:47.530504: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:47.711158: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:47.711472: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:47.721395: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:47.746154: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:47.782857: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:47.783305: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:47.806426: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:47.878454: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:47.879609: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:48.05828: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:48.05858: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:48.066772: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:48.11919: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:48.185581: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:48.18612: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:48.216072: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:48.300112: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:48.302333: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:48.40071: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:48.40103: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:48.408197: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:48.444913: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:48.497518: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:48.498549: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:48.522329: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:48.581624: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:48.584778: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:48.669409: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:48.669722: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:48.676741: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:48.706693: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:48.76956: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:48.770049: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:48.788549: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:48.853965: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:48.855154: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:48.938685: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:48.938999: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:48.951899: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:48.982725: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:49.049672: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-11 00:04:49.050478: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:49.079077: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:49.139741: embedding
> test_pipeop_isomap.R: 2025-12-11 00:04:49.14097: DONE
> test_pipeop_isomap.R: 2025-12-11 00:04:49.24331: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:49.243629: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:49.253575: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:49.286573: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:49.388923: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:49.389235: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:49.396853: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:49.435287: Classical Scaling
> test_pipeop_isomap.R: 2025-12-11 00:04:49.458417: Isomap START
> test_pipeop_isomap.R: 2025-12-11 00:04:49.458735: constructing knn graph
> test_pipeop_isomap.R: 2025-12-11 00:04:49.473991: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-11 00:04:49.50971: 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_nmf.R:6:3',
'test_pipeop_randomresponse.R:5:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_replicate.R:9:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_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' [265s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R:
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-08 16:48:22.131556: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:22.132692: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:22.149989: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:22.178521: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:22.253759: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:22.254402: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:22.265433: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:22.286387: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:22.328776: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:22.329903: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:22.352758: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:22.40449: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:22.406721: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:22.446992: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:22.44767: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:22.488391: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:22.541501: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:22.543357: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:22.675607: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:22.676303: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:22.695814: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:22.812078: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:22.867537: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:22.868545: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:22.934161: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:23.188579: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:23.194143: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:23.414131: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:23.414784: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:23.4254: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:23.448099: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:23.495179: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:23.496186: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:23.596655: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:23.650785: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:23.65256: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:23.884497: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:23.885129: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:23.895987: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:23.918944: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:23.988746: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:23.989638: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:24.014395: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:24.064008: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:24.065945: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:24.183548: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:24.184037: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:24.191244: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:24.207469: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:24.289423: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:24.290575: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:24.311283: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:24.360572: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:24.362498: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:24.472393: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:24.473096: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:24.481745: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:24.497991: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:24.564935: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:24.565833: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:24.598008: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:24.646507: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:24.647752: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:24.74044: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:24.740886: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:24.749412: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:24.771582: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:24.819064: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 16:48:24.819693: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:24.834576: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:24.884979: embedding
> test_pipeop_isomap.R: 2025-12-08 16:48:24.887043: DONE
> test_pipeop_isomap.R: 2025-12-08 16:48:25.799923: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:25.800654: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:25.813274: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:25.83647: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:25.960827: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:25.961606: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:25.973366: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:25.996246: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 16:48:26.034493: Isomap START
> test_pipeop_isomap.R: 2025-12-08 16:48:26.035251: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 16:48:26.047275: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 16:48:26.070344: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_encodepl.R:5:3', 'test_pipeop_encodepl.R:72:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_learnercv.R:31:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_nearmiss.R:7:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_replicate.R:9:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_rowapply.R:6:3', '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