Last updated on 2026-01-21 03:50:48 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| miesmuschel | 13 | ||
| mlr | 2 | 11 | |
| mlr3pipelines | 3 | 10 | |
| paradox | 13 | ||
| ParamHelpers | 13 |
Current CRAN status: OK: 13
Current CRAN status: NOTE: 2, OK: 11
Version: 2.19.3
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘Rmpi’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 2.19.3
Check: installed package size
Result: NOTE
installed size is 5.6Mb
sub-directories of 1Mb or more:
R 2.0Mb
data 2.3Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Current CRAN status: ERROR: 3, OK: 10
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’ [110s/54s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
Saving _problems/test_filter_ensemble-294.R
Saving _problems/test_filter_ensemble-307.R
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2026-01-21 08:42:49.873941: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:49.874198: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:49.877371: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:49.883953: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:49.896525: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:49.896671: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:49.899113: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:49.905291: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:49.913667: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:49.914: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:49.918997: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:49.934108: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:49.934483: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:49.941896: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:49.942056: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:49.946821: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:49.962023: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:49.962534: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:49.986851: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:49.987019: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:49.998814: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.034046: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.043204: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.043383: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.052787: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.133336: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:50.134484: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:50.172494: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.172632: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.175034: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.181308: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.195122: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.195326: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.200359: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.215871: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:50.216293: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:50.248255: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.248385: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.250576: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.256558: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.268356: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.268537: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.273078: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.288914: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:50.289364: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:50.309164: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.309295: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.311592: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.318077: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.336557: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.336762: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.34145: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.356691: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:50.357072: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:50.37646: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.376605: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.378914: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.38512: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.396283: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.39646: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.400958: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.415684: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:50.416059: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:50.431391: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.431503: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.434326: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.440381: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.45278: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.452965: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.463684: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.479454: embedding
> test_pipeop_isomap.R: 2026-01-21 08:42:50.479922: DONE
> test_pipeop_isomap.R: 2026-01-21 08:42:50.503102: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.503256: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.505801: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.512227: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.53298: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.533133: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.53556: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.54218: Classical Scaling
> test_pipeop_isomap.R: 2026-01-21 08:42:50.548582: Isomap START
> test_pipeop_isomap.R: 2026-01-21 08:42:50.54874: constructing knn graph
> test_pipeop_isomap.R: 2026-01-21 08:42:50.551198: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-21 08:42:50.557255: Classical Scaling
Saving _problems/test_pipeop_nmf-45.R
Saving _problems/test_pipeop_nmf-73.R
Saving _problems/test_pipeop_nmf-93.R
Saving _problems/test_pipeop_nmf-98.R
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_textvectorizer.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_pipeop_textvectorizer.R: Use 'as(., "TsparseMatrix")' instead.
> test_pipeop_textvectorizer.R: See help("Deprecated") and help("Matrix-deprecated").
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 8 | WARN 0 | SKIP 99 | PASS 13004 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_imputelearner.R:43:3',
'test_pipeop_impute.R:4:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_nmf.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_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_rowapply.R:6:3', 'test_pipeop_smotenc.R:8:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_task_preproc.R:4:3', 'test_pipeop_task_preproc.R:14:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_filter_ensemble.R:294:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all(is.nan(permutation_filter$scores[task$feature_names]))` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_filter_ensemble.R:307:3'): FilterEnsemble ignores NA scores from wrapped filters ──
Expected `all.equal(object, expected, check.environment = FALSE, ...)` to be TRUE.
Differences:
`actual` is a character vector ('Mean relative difference: 0.5427381')
`expected` is a logical vector (TRUE)
Backtrace:
▆
1. └─global expect_equal(combined_scores, variance_scores * weights[["variance"]]) at test_filter_ensemble.R:307:3
2. └─testthat::expect_true(...)
── Error ('test_pipeop_datefeatures.R:7:3'): PipeOpDateFeatures - basic properties ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:7:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_datefeatures.R:17:3'): PipeOpDateFeatures - finds POSIXct column ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:17:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_nmf.R:45:3'): PipeOpNMF - does not modify search path when NMF is not loaded, fix for #929 ──
Error in `detach(package:generics)`: invalid 'name' argument
Backtrace:
▆
1. └─base::detach(package:generics) at test_pipeop_nmf.R:45:3
── Failure ('test_pipeop_nmf.R:73:3'): PipeOpNMF - does not modify search path when NMF is loaded, fix for #929 ──
Expected `all(...)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_pipeop_nmf.R:93:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Expected `all(paste0("package:", c("BiocGenerics", "generics")) %in% search())` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test_pipeop_nmf.R:98:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Error in `FUN(X[[i]], ...)`: invalid 'name' argument
This happened in PipeOp nmf's $train()
Backtrace:
▆
1. ├─op$train(list(tsk("iris"))) at test_pipeop_nmf.R:98:3
2. │ └─mlr3pipelines:::.__PipeOp__train(...)
3. │ ├─base::withCallingHandlers(...)
4. │ └─private$.train(input)
5. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train(...)
6. │ └─private$.train_task(intask)
7. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train_task(...)
8. │ ├─data.table::as.data.table(...)
9. │ └─private$.train_dt(dt, task$levels(cols), task$truth())
10. │ └─mlr3pipelines:::.__PipeOpNMF__.train_dt(...)
11. │ └─mlr3misc::map(to_be_detached, detach, character.only = TRUE)
12. │ └─base::lapply(.x, .f, ...)
13. │ └─base (local) FUN(X[[i]], ...)
14. │ └─base::stop("invalid 'name' argument")
15. └─base::.handleSimpleError(...)
16. └─mlr3pipelines (local) h(simpleError(msg, call))
[ FAIL 8 | WARN 0 | SKIP 99 | PASS 13004 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-macos-arm64
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [327s/420s]
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]
> test_pipeop_blsmote.R: "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1]
> test_pipeop_blsmote.R: "Borderline-SMOTE done"
> test_pipeop_blsmote.R:
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2026-01-20 19:39:50.542531: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:50.543065: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:50.565348: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:50.612277: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:50.702771: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:50.70309: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:50.720412: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:50.775632: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:50.826768: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:50.827268: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:50.972264: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:51.064469: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:51.065673: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:51.113324: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:51.113644: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:51.154742: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:51.261696: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:51.262794: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:51.436146: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:51.436432: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:52.15196: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:52.400845: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:52.470969: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:52.471406: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:52.559519: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:53.081073: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:53.1013: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:53.366996: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:53.367294: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:53.389297: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:53.418738: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:53.493537: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:53.493962: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:53.52315: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:53.630009: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:53.631106: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:53.887308: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:53.887615: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:53.94326: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:53.985946: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:54.083209: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:54.083647: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:54.109611: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:54.211394: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:54.212511: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:54.386154: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:54.386448: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:54.411209: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:54.459224: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:54.538965: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:54.539406: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:54.588403: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:54.674994: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:54.676066: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:54.834513: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:54.834826: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:54.861532: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:54.89299: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:54.991626: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:54.992139: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:55.02345: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:55.126446: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:55.12757: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:55.29298: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:55.293283: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:55.321733: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:55.35091: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:55.444735: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-20 19:39:55.445166: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:55.472848: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:55.575994: embedding
> test_pipeop_isomap.R: 2026-01-20 19:39:55.577113: DONE
> test_pipeop_isomap.R: 2026-01-20 19:39:55.725256: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:55.725567: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:55.745934: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:55.789934: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:55.9291: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:55.929403: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:55.957531: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:56.005689: Classical Scaling
> test_pipeop_isomap.R: 2026-01-20 19:39:56.053922: Isomap START
> test_pipeop_isomap.R: 2026-01-20 19:39:56.05422: constructing knn graph
> test_pipeop_isomap.R: 2026-01-20 19:39:56.062807: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-20 19:39:56.096514: 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:
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_nmf.R:6:3', 'test_pipeop_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' [301s]
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:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2026-01-19 10:20:27.838534: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:27.839509: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:27.856128: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:27.88005: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:27.958594: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:27.959254: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:27.986736: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:28.009387: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:28.053824: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:28.054757: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:28.073217: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:28.10909: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:28.111074: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:28.154853: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:28.155538: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:28.177328: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:28.227642: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:28.229566: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:28.402539: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:28.403045: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:28.417618: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:28.530639: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:28.583618: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:28.584525: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:29.232242: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:29.449279: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:29.453309: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:29.660972: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:29.661558: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:29.669922: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:29.687335: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:29.7453: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:29.746284: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:29.769661: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:29.820397: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:29.822402: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:30.036241: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:30.036724: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:30.046506: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:30.065501: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:30.148426: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:30.149117: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:30.177533: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:30.212302: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:30.213491: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:30.301078: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:30.301535: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:30.308223: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:30.330631: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:30.409232: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:30.410237: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:30.42995: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:30.480458: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:30.482513: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:30.612677: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:30.613458: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:30.626466: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:30.655051: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:30.725397: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:30.726526: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:30.749835: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:30.785104: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:30.786851: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:30.905862: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:30.906518: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:30.935734: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:30.958421: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:31.03301: L-Isomap embed START
> test_pipeop_isomap.R: 2026-01-19 10:20:31.033976: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:31.055022: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:31.101401: embedding
> test_pipeop_isomap.R: 2026-01-19 10:20:31.103051: DONE
> test_pipeop_isomap.R: 2026-01-19 10:20:31.221524: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:31.222162: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:31.233779: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:31.255582: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:31.377731: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:31.378406: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:31.390411: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:31.411944: Classical Scaling
> test_pipeop_isomap.R: 2026-01-19 10:20:31.448615: Isomap START
> test_pipeop_isomap.R: 2026-01-19 10:20:31.449263: constructing knn graph
> test_pipeop_isomap.R: 2026-01-19 10:20:31.461099: calculating geodesic distances
> test_pipeop_isomap.R: 2026-01-19 10:20:31.484509: 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 8 | WARN 0 | SKIP 99 | PASS 13004 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_histbin.R:7:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_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_select.R:9:3', 'test_pipeop_rowapply.R:6:3',
'test_pipeop_smote.R:10:3', 'test_pipeop_smotenc.R:8:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_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: 0.5223047')
`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-windows-x86_64
Current CRAN status: OK: 13
Current CRAN status: OK: 13