Last updated on 2025-12-31 11:49:55 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 38.84 | 808.84 | 847.68 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 25.16 | 521.04 | 546.20 | 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 | 37.00 | 540.00 | 577.00 | OK | |
| r-oldrel-macos-arm64 | 0.10.0 | 8.00 | 134.00 | 142.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.10.0 | 25.00 | 715.00 | 740.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 52.00 | 688.00 | 740.00 | ERROR |
Version: 0.10.0
Check: examples
Result: ERROR
Running examples in ‘mlr3pipelines-Ex.R’ failed
The error most likely occurred in:
> ### Name: mlr_pipeops_nmf
> ### Title: Non-negative Matrix Factorization
> ### Aliases: mlr_pipeops_nmf PipeOpNMF
>
> ### ** Examples
>
> ## Don't show:
> if (mlr3misc::require_namespaces(c("NMF", "MASS"), quietly = TRUE)) withAutoprint({ # examplesIf
+ ## End(Don't show)
+ ## Don't show:
+ # NMF attaches these packages to search path on load, #929
+ lapply(c("package:Biobase", "package:BiocGenerics", "package:generics"), detach, character.only = TRUE)
+ ## End(Don't show)
+ library("mlr3")
+
+ task = tsk("iris")
+ pop = po("nmf")
+
+ task$data()
+ pop$train(list(task))[[1]]$data()
+
+ pop$state
+ ## Don't show:
+ # BiocGenerics overwrites printer for our tables mlr-org/mlr3#1112
+ # Necessary as detaching packages does not remove registered S3 methods
+ suppressWarnings(try(rm("format.list", envir = .BaseNamespaceEnv$.__S3MethodsTable__.), silent = TRUE))
+ ## End(Don't show)
+ ## Don't show:
+ }) # examplesIf
> lapply(c("package:Biobase", "package:BiocGenerics", "package:generics"),
+ detach, character.only = TRUE)
Error in FUN(X[[i]], ...) : invalid 'name' argument
Calls: withAutoprint ... withVisible -> eval -> eval -> lapply -> lapply -> FUN
Execution halted
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [106s/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: 2025-12-31 21:03:09.66312: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.66339: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.666441: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.672465: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:09.68343: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.683568: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.685926: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.691982: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:09.699219: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.69938: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.703766: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.718294: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:09.718681: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:09.724064: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.724176: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.735054: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.749299: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:09.749612: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:09.767452: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.767575: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.77173: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.804559: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:09.813848: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.814067: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.822631: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.900946: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:09.90214: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:09.9433: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.943447: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.945855: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.952434: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:09.960001: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:09.960185: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:09.964589: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:09.979479: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:09.979871: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:10.013072: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.013248: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.015917: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.022231: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:10.035108: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.035312: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.040592: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.055416: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:10.055844: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:10.081854: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.081988: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.084215: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.090313: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:10.102125: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.102344: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.106976: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.122037: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:10.122527: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:10.140735: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.140861: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.143333: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.149531: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:10.162325: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.162572: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.167179: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.182002: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:10.182435: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:10.206625: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.206785: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.208988: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.215093: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:10.228307: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.228511: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.232891: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.247837: embedding
> test_pipeop_isomap.R: 2025-12-31 21:03:10.24826: DONE
> test_pipeop_isomap.R: 2025-12-31 21:03:10.267155: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.26729: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.269532: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.275431: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:10.29357: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.293691: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.29604: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.302021: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 21:03:10.307437: Isomap START
> test_pipeop_isomap.R: 2025-12-31 21:03:10.307543: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 21:03:10.309781: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 21:03:10.315989: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_textvectorizer.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_pipeop_textvectorizer.R: Use 'as(., "TsparseMatrix")' instead.
> test_pipeop_textvectorizer.R: See help("Deprecated") and help("Matrix-deprecated").
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 8 | WARN 0 | SKIP 99 | PASS 13004 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_encodepl.R:5:3', 'test_pipeop_encodepl.R:72:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_ensemble.R:6:3', '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_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_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_rowapply.R:6:3', 'test_pipeop_smotenc.R:8:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_task_preproc.R:4:3',
'test_pipeop_task_preproc.R:14:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_filter_ensemble.R:294:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all(is.nan(permutation_filter$scores[task$feature_names]))` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_filter_ensemble.R:307:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all.equal(object, expected, check.environment = FALSE, ...)` to be TRUE.
Differences:
`actual` is a character vector ('Mean relative difference: 0.3248212')
`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’ [325s/412s]
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:
> 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:
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1]
> test_pipeop_blsmote.R: "Borderline-SMOTE done"
> test_pipeop_blsmote.R:
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-31 03:35:09.855332: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:09.8746: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:09.883459: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:09.943426: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:10.066906: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:10.067205: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:10.087183: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:10.133845: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:10.187404: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:10.187873: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:10.282061: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:10.376787: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:10.377935: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:10.43991: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:10.440234: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:10.470559: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:10.585355: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:10.586611: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:10.770315: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:10.770625: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:10.79866: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:11.084083: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:11.162168: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:11.163231: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:11.262949: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:11.904724: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:11.946977: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:12.246227: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:12.246556: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:12.253435: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:12.287861: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:12.368088: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:12.368528: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:12.423446: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:12.525983: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:12.527086: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:12.798933: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:12.813286: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:12.821051: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:12.900525: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:13.004701: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:13.005149: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:13.036381: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:13.173405: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:13.174545: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:13.329692: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:13.330014: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:13.362335: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:13.391411: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:13.513353: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:13.513821: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:13.563908: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:13.664018: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:13.665245: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:13.818672: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:13.818979: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:13.944062: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:13.986818: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:14.082278: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:14.082707: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:14.136095: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:14.234334: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:14.235482: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:14.383788: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:14.384098: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:14.401124: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:14.42912: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:14.52854: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-31 03:35:14.528995: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:14.574909: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:14.690218: embedding
> test_pipeop_isomap.R: 2025-12-31 03:35:14.692283: DONE
> test_pipeop_isomap.R: 2025-12-31 03:35:14.872485: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:14.872785: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:14.893191: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:14.955011: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:15.104901: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:15.105205: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:15.13161: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:15.171953: Classical Scaling
> test_pipeop_isomap.R: 2025-12-31 03:35:15.249919: Isomap START
> test_pipeop_isomap.R: 2025-12-31 03:35:15.250217: constructing knn graph
> test_pipeop_isomap.R: 2025-12-31 03:35:15.273687: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-31 03:35:15.305082: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_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_nmf.R:6:3',
'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_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_rowapply.R:6:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_subsample.R:6:3',
'test_pipeop_targetinvert.R:4:3', 'test_pipeop_targetmutate.R:5:3',
'test_pipeop_targettrafo.R:4:3', 'test_pipeop_targettrafoscalerange.R:5:3',
'test_pipeop_task_preproc.R:4:3', 'test_pipeop_task_preproc.R:14:3',
'test_pipeop_spatialsign.R:6:3', 'test_pipeop_tomek.R:7:3',
'test_pipeop_textvectorizer.R:37:3', 'test_pipeop_textvectorizer.R:186:3',
'test_pipeop_unbranch.R:10:3', 'test_pipeop_updatetarget.R:89:3',
'test_pipeop_vtreat.R:9:3', 'test_pipeop_yeojohnson.R:7:3',
'test_pipeop_tunethreshold.R:111:3', 'test_pipeop_tunethreshold.R:191:3',
'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_pipeop_datefeatures.R:7:3'): PipeOpDateFeatures - basic properties ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:7:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_datefeatures.R:17:3'): PipeOpDateFeatures - finds POSIXct column ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:17:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_nmf.R:45:3'): PipeOpNMF - does not modify search path when NMF is not loaded, fix for #929 ──
Error in `detach(package:generics)`: invalid 'name' argument
Backtrace:
▆
1. └─base::detach(package:generics) at test_pipeop_nmf.R:45:3
── Failure ('test_pipeop_nmf.R:73:3'): PipeOpNMF - does not modify search path when NMF is loaded, fix for #929 ──
Expected `all(...)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_pipeop_nmf.R:93:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Expected `all(paste0("package:", c("BiocGenerics", "generics")) %in% search())` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test_pipeop_nmf.R:98:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Error in `FUN(X[[i]], ...)`: invalid 'name' argument
This happened in PipeOp nmf's $train()
Backtrace:
▆
1. ├─op$train(list(tsk("iris"))) at test_pipeop_nmf.R:98:3
2. │ └─mlr3pipelines:::.__PipeOp__train(...)
3. │ ├─base::withCallingHandlers(...)
4. │ └─private$.train(input)
5. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train(...)
6. │ └─private$.train_task(intask)
7. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train_task(...)
8. │ ├─data.table::as.data.table(...)
9. │ └─private$.train_dt(dt, task$levels(cols), task$truth())
10. │ └─mlr3pipelines:::.__PipeOpNMF__.train_dt(...)
11. │ └─mlr3misc::map(to_be_detached, detach, character.only = TRUE)
12. │ └─base::lapply(.x, .f, ...)
13. │ └─base (local) FUN(X[[i]], ...)
14. │ └─base::stop("invalid 'name' argument")
15. └─base::.handleSimpleError(...)
16. └─mlr3pipelines (local) h(simpleError(msg, call))
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-macos-x86_64
Version: 0.10.0
Check: tests
Result: ERROR
Running 'testthat.R' [298s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R:
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R:
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-29 23:58:08.39592: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.397001: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.415444: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.432775: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:08.48134: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.482003: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.493394: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.509237: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:08.541266: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.541932: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.557638: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.59562: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:08.597146: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:08.626392: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.626867: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.642581: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.696343: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:08.716096: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:08.84862: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:08.84923: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:08.870996: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:08.986946: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:09.040497: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.041379: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.080702: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.286405: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:09.29159: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:09.523103: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.523722: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.534337: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.557069: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:09.627172: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.62803: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.650044: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.694663: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:09.695734: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:09.91991: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:09.920563: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:09.932632: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:09.954441: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.031702: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.032621: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.055415: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.105656: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.107462: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:10.232661: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.233306: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.245937: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.273066: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.348642: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.349526: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.388423: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.437995: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.439157: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:10.560174: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.560797: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.571369: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.593617: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.668105: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.669004: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.687689: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.737882: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.739425: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:10.829189: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.829685: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.837691: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.858411: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:10.933407: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-29 23:58:10.934289: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:10.952716: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:10.995014: embedding
> test_pipeop_isomap.R: 2025-12-29 23:58:10.996929: DONE
> test_pipeop_isomap.R: 2025-12-29 23:58:11.142308: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:11.143: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:11.170818: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:11.194719: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:11.315518: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:11.316138: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:11.328614: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:11.351195: Classical Scaling
> test_pipeop_isomap.R: 2025-12-29 23:58:11.387378: Isomap START
> test_pipeop_isomap.R: 2025-12-29 23:58:11.38798: constructing knn graph
> test_pipeop_isomap.R: 2025-12-29 23:58:11.400866: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-29 23:58:11.419185: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_textvectorizer.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_pipeop_textvectorizer.R: Use 'as(., "TsparseMatrix")' instead.
> test_pipeop_textvectorizer.R: See help("Deprecated") and help("Matrix-deprecated").
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_imputelearner.R:43:3',
'test_pipeop_impute.R:4:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_learnercv.R:31:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_multiplicityimply.R:9:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_replicate.R:9:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_rowapply.R:6:3', 'test_pipeop_scalemaxabs.R:6:3',
'test_pipeop_scalerange.R:7:3', 'test_pipeop_select.R:9:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_task_preproc.R:4:3',
'test_pipeop_task_preproc.R:14:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_pipeop_datefeatures.R:7:3'): PipeOpDateFeatures - basic properties ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:7:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_datefeatures.R:17:3'): PipeOpDateFeatures - finds POSIXct column ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:17:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_nmf.R:45:3'): PipeOpNMF - does not modify search path when NMF is not loaded, fix for #929 ──
Error in `detach(package:generics)`: invalid 'name' argument
Backtrace:
▆
1. └─base::detach(package:generics) at test_pipeop_nmf.R:45:3
── Failure ('test_pipeop_nmf.R:73:3'): PipeOpNMF - does not modify search path when NMF is loaded, fix for #929 ──
Expected `all(...)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_pipeop_nmf.R:93:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Expected `all(paste0("package:", c("BiocGenerics", "generics")) %in% search())` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test_pipeop_nmf.R:98:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Error in `FUN(X[[i]], ...)`: invalid 'name' argument
This happened in PipeOp nmf's $train()
Backtrace:
▆
1. ├─op$train(list(tsk("iris"))) at test_pipeop_nmf.R:98:3
2. │ └─mlr3pipelines:::.__PipeOp__train(...)
3. │ ├─base::withCallingHandlers(...)
4. │ └─private$.train(input)
5. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train(...)
6. │ └─private$.train_task(intask)
7. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train_task(...)
8. │ ├─data.table::as.data.table(...)
9. │ └─private$.train_dt(dt, task$levels(cols), task$truth())
10. │ └─mlr3pipelines:::.__PipeOpNMF__.train_dt(...)
11. │ └─mlr3misc::map(to_be_detached, detach, character.only = TRUE)
12. │ └─base::lapply(.x, .f, ...)
13. │ └─base (local) FUN(X[[i]], ...)
14. │ └─base::stop("invalid 'name' argument")
15. └─base::.handleSimpleError(...)
16. └─mlr3pipelines (local) h(simpleError(msg, call))
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-windows-x86_64