Last updated on 2025-12-08 19:50:15 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.10.0 | 37.69 | 765.78 | 803.47 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.10.0 | 23.85 | 496.62 | 520.47 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.10.0 | 198.00 | 1148.48 | 1346.48 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.10.0 | 176.00 | 1136.63 | 1312.63 | OK | |
| r-devel-windows-x86_64 | 0.10.0 | 37.00 | 557.00 | 594.00 | OK | |
| r-patched-linux-x86_64 | 0.10.0 | 52.79 | 696.73 | 749.52 | OK | |
| r-release-linux-x86_64 | 0.10.0 | 37.45 | 708.26 | 745.71 | OK | |
| r-release-macos-arm64 | 0.10.0 | OK | ||||
| r-release-macos-x86_64 | 0.10.0 | 37.00 | 531.00 | 568.00 | OK | |
| r-release-windows-x86_64 | 0.10.0 | 37.00 | 525.00 | 562.00 | OK | |
| r-oldrel-macos-arm64 | 0.10.0 | 10.00 | 116.00 | 126.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.10.0 | 59.00 | 511.00 | 570.00 | ERROR | |
| r-oldrel-windows-x86_64 | 0.10.0 | 49.00 | 639.00 | 688.00 | ERROR |
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [13m/14m]
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:
> 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:
> 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:
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R:
> test_PipeOp.R: Predicting test_autotrain
> test_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-depr
> test_mlr_graphs_robustify.R: ecated").
> test_multiplicities.R:
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1]
> test_pipeop_blsmote.R: "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_isomap.R: 2025-12-03 20:30:52.178844: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:52.188225: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:52.241396: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:52.3382: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:52.63962: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:52.640393: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:52.673667: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:52.73436: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:52.852686: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:52.853773: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:52.93476: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:53.094272: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:53.09641: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:53.223601: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:53.232458: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:53.319694: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:53.494901: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:53.503531: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:53.847005: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:53.847743: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:53.937428: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:54.430068: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:54.57678: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:54.57794: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:54.807348: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:56.204557: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:56.226136: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:57.125875: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:57.126669: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:57.162276: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:57.230187: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:57.375948: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:57.376974: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:57.452791: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:57.696058: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:57.709529: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:58.093506: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:58.094303: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:58.113741: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:58.145293: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:58.236962: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:58.240657: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:58.34573: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:58.412291: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:58.416551: DONE
> test_pipeop_isomap.R: 2025-12-03 20:30:58.74213: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:30:58.742924: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:58.770496: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:58.850435: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:30:59.035268: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:30:59.038904: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:30:59.095923: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:30:59.262424: embedding
> test_pipeop_isomap.R: 2025-12-03 20:30:59.271001: DONE
> test_pipeop_isomap.R: 2025-12-03 20:31:00.081115: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:00.087914: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:00.112966: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:00.195289: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:00.43192: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:31:00.433025: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:00.511669: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:00.681612: embedding
> test_pipeop_isomap.R: 2025-12-03 20:31:00.688634: DONE
> test_pipeop_isomap.R: 2025-12-03 20:31:01.035443: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:01.036204: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:01.06221: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:01.148698: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:01.372226: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-03 20:31:01.373302: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:01.446755: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:01.601827: embedding
> test_pipeop_isomap.R: 2025-12-03 20:31:01.609045: DONE
> test_pipeop_isomap.R: 2025-12-03 20:31:01.889582: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:01.890339: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:01.978638: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:02.013733: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:02.193271: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:02.19405: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:02.224538: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:02.290909: Classical Scaling
> test_pipeop_isomap.R: 2025-12-03 20:31:02.374123: Isomap START
> test_pipeop_isomap.R: 2025-12-03 20:31:02.381299: constructing knn graph
> test_pipeop_isomap.R: 2025-12-03 20:31:02.410511: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-03 20:31:02.470767: Classical Scaling
> test_pipeop_nmf.R: [PipeOpNMFstate]
> test_pipeop_nmf.R: [PipeOpNMFstate]
> test_pipeop_task_preproc.R: 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:
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: 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_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R:
> 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:
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_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 2 | WARN 0 | SKIP 100 | PASS 13055 ]
══ Skipped tests (100) ═════════════════════════════════════════════════════════
• On CRAN (96): '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_datefeatures.R:10:3', 'test_pipeop_encodeimpact.R:11:3',
'test_pipeop_encodelmer.R:15:3', 'test_pipeop_encodelmer.R:37:3',
'test_pipeop_encodelmer.R:80:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_featureunion.R:9:3',
'test_pipeop_featureunion.R:134:3', 'test_pipeop_filter.R:7:3',
'test_pipeop_fixfactors.R:9:3', 'test_pipeop_histbin.R:7:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_ensemble.R:6:3',
'test_pipeop_impute.R:4:3', 'test_pipeop_imputelearner.R:43:3',
'test_pipeop_isomap.R:10:3', 'test_pipeop_kernelpca.R:9:3',
'test_pipeop_learner.R:17:3', 'test_pipeop_info.R:6:3',
'test_pipeop_learnerpicvplus.R:163:3', 'test_pipeop_missind.R:6:3',
'test_pipeop_modelmatrix.R:7:3', 'test_pipeop_learnercv.R:31:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_mutate.R:9:3',
'test_pipeop_nearmiss.R:7:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_ovr.R:9:3', 'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_replicate.R:9:3', 'test_pipeop_rowapply.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_smote.R:10:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_spatialsign.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_subsample.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: 0.9110593')
`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(...)
[ FAIL 2 | WARN 0 | SKIP 100 | PASS 13055 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
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’ [104s/50s]
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: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> 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: 2025-12-09 06:25:14.144827: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.145084: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.148394: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.154946: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.166506: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.166615: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.16889: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.174993: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.182589: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.18275: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.186626: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.202046: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.202439: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.208096: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.208241: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.212313: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.227005: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.227492: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.255814: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.255921: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.259762: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.294829: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.303212: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.303391: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.311986: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.390697: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.391715: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.421309: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.42147: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.42386: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.429913: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.436929: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.437146: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.441806: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.456516: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.4569: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.488558: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.488724: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.491154: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.497278: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.5083: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.508489: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.519417: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.533996: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.534344: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.550916: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.551047: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.553277: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.559171: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.569387: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.569576: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.573799: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.588995: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.589367: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.605418: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.605542: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.607972: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.614259: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.62325: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.62339: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.627475: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.643168: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.643577: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.6616: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.661738: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.664113: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.670309: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.680847: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.681025: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.685411: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.700632: embedding
> test_pipeop_isomap.R: 2025-12-09 06:25:14.701053: DONE
> test_pipeop_isomap.R: 2025-12-09 06:25:14.719347: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.719469: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.721776: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.727739: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.751241: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.751383: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.753531: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.759604: Classical Scaling
> test_pipeop_isomap.R: 2025-12-09 06:25:14.764335: Isomap START
> test_pipeop_isomap.R: 2025-12-09 06:25:14.764438: constructing knn graph
> test_pipeop_isomap.R: 2025-12-09 06:25:14.766744: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-09 06:25:14.772936: 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_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_encodepl.R:5:3', 'test_pipeop_encodepl.R:72:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ensemble.R:6:3',
'test_pipeop_ica.R:7:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_nmf.R:6:3', 'test_pipeop_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-arm64
Version: 0.10.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [305s/254s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (requireNamespace("testthat", quietly = TRUE)) {
+ library("checkmate")
+ library("testthat")
+ library("mlr3")
+ library("paradox")
+ library("mlr3pipelines")
+ test_check("mlr3pipelines")
+ }
Starting 2 test processes.
> test_Graph.R: Training debug.multi with input list(input_1 = 1, input_2 = 1)
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_PipeOp.R: Training test_autotrain
> test_PipeOp.R: Predicting test_autotrain
> test_filter_ensemble.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_mlr_graphs_robustify.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_mlr_graphs_robustify.R: Use 'as(., "TsparseMatrix")' instead.
> test_mlr_graphs_robustify.R: See help("Deprecated") and help("Matrix-deprecated").
> test_multiplicities.R:
> test_multiplicities.R: [[1]]
> test_multiplicities.R: [1] 0
> test_multiplicities.R:
> test_multiplicities.R:
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
> test_pipeop_blsmote.R: [1] "Borderline-SMOTE done"
Saving _problems/test_pipeop_datefeatures-7.R
Saving _problems/test_pipeop_datefeatures-17.R
> test_pipeop_isomap.R: 2025-12-08 11:54:25.891383: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:25.892049: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:25.90307: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:25.921336: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:25.971113: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:25.97152: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:25.979364: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:26.0001: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:26.032946: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:26.033528: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:26.050902: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:26.115275: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:26.117271: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:26.140145: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:26.14053: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:26.155765: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:26.206318: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:26.209231: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:26.296765: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:26.297069: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:26.313364: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:26.435039: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:26.473932: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:26.474512: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:26.509149: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:26.742524: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:26.746212: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:26.842908: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:26.84322: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:26.850657: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:26.867305: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:26.886756: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:26.887188: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:26.900901: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:26.940345: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:26.952411: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:27.063904: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.065481: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.074593: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.093139: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:27.141175: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.143316: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.160724: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.214417: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:27.215796: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:27.299692: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.300099: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.308863: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.33023: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:27.372405: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.372892: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.390336: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.437113: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:27.438275: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:27.50248: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.502798: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.512202: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.532253: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:27.574506: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.574947: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.592916: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.644317: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:27.645639: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:27.740046: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.740346: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.747827: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.774226: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:27.815877: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.816355: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.831249: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:27.883253: embedding
> test_pipeop_isomap.R: 2025-12-08 11:54:27.885044: DONE
> test_pipeop_isomap.R: 2025-12-08 11:54:27.964303: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:27.964881: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:27.978246: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:28.000484: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:28.075188: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:28.075491: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:28.084752: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:28.105648: Classical Scaling
> test_pipeop_isomap.R: 2025-12-08 11:54:28.126974: Isomap START
> test_pipeop_isomap.R: 2025-12-08 11:54:28.127284: constructing knn graph
> test_pipeop_isomap.R: 2025-12-08 11:54:28.13523: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-08 11:54:28.158655: 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:
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_task_preproc.R: Training debug_affectcols
> test_pipeop_textvectorizer.R: 'as(<dgCMatrix>, "dgTMatrix")' is deprecated.
> test_pipeop_textvectorizer.R: Use 'as(., "TsparseMatrix")' instead.
> test_pipeop_textvectorizer.R: See help("Deprecated") and help("Matrix-deprecated").
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
> test_pipeop_tunethreshold.R: OptimInstanceSingleCrit is deprecated. Use OptimInstanceBatchSingleCrit instead.
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
══ Skipped tests (99) ══════════════════════════════════════════════════════════
• On CRAN (95): 'test_CnfFormula_simplify.R:6:3', 'test_CnfFormula.R:591:3',
'test_Graph.R:283:3', 'test_PipeOp.R:32:1', 'test_GraphLearner.R:5:3',
'test_GraphLearner.R:221:3', 'test_GraphLearner.R:343:3',
'test_GraphLearner.R:408:3', 'test_GraphLearner.R:571:3',
'test_dictionary.R:7:3', 'test_learner_weightedaverage.R:5:3',
'test_learner_weightedaverage.R:57:3',
'test_learner_weightedaverage.R:105:3',
'test_learner_weightedaverage.R:152:3', 'test_meta.R:39:3',
'test_mlr_graphs_branching.R:26:3', 'test_mlr_graphs_bagging.R:6:3',
'test_mlr_graphs_robustify.R:5:3', 'test_pipeop_adas.R:8:3',
'test_pipeop_blsmote.R:8:3', 'test_pipeop_branch.R:4:3',
'test_pipeop_chunk.R:4:3', 'test_pipeop_classbalancing.R:7:3',
'test_pipeop_boxcox.R:7:3', 'test_pipeop_classweights.R:10:3',
'test_pipeop_collapsefactors.R:6:3', 'test_pipeop_colapply.R:9:3',
'test_pipeop_copy.R:5:3', 'test_pipeop_colroles.R:6:3',
'test_pipeop_decode.R:14:3', 'test_pipeop_encode.R:21:3',
'test_pipeop_encodeimpact.R:11:3', 'test_pipeop_encodepl.R:5:3',
'test_pipeop_encodepl.R:72:3', 'test_pipeop_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_nearmiss.R:7:3',
'test_pipeop_learnercv.R:31:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_nmf.R:6:3', 'test_pipeop_removeconstants.R:6:3',
'test_pipeop_renamecolumns.R:6:3', 'test_pipeop_replicate.R:9:3',
'test_pipeop_scale.R:6:3', 'test_pipeop_scale.R:10:3',
'test_pipeop_scalemaxabs.R:6:3', 'test_pipeop_scalerange.R:7:3',
'test_pipeop_select.R:9:3', 'test_pipeop_smote.R:10:3',
'test_pipeop_smotenc.R:8:3', 'test_pipeop_rowapply.R:6:3',
'test_pipeop_subsample.R:6:3', 'test_pipeop_targetinvert.R:4:3',
'test_pipeop_targetmutate.R:5:3', 'test_pipeop_targettrafo.R:4:3',
'test_pipeop_targettrafoscalerange.R:5:3', 'test_pipeop_task_preproc.R:4:3',
'test_pipeop_task_preproc.R:14:3', 'test_pipeop_spatialsign.R:6:3',
'test_pipeop_tomek.R:7:3', 'test_pipeop_textvectorizer.R:37:3',
'test_pipeop_textvectorizer.R:186:3', 'test_pipeop_unbranch.R:10:3',
'test_pipeop_updatetarget.R:89:3', 'test_pipeop_vtreat.R:9:3',
'test_pipeop_yeojohnson.R:7:3', 'test_pipeop_tunethreshold.R:111:3',
'test_pipeop_tunethreshold.R:191:3', 'test_typecheck.R:188:3'
• Skipping (1): 'test_GraphLearner.R:1278:3'
• empty test (3): 'test_pipeop_isomap.R:111:1', 'test_pipeop_missind.R:101:1',
'test_ppl.R:61:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_pipeop_datefeatures.R:7:3'): PipeOpDateFeatures - basic properties ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:7:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_datefeatures.R:17:3'): PipeOpDateFeatures - finds POSIXct column ──
Error in `seq.Date(as.Date("2020-01-31"), length.out = 150L)`: exactly two of 'to', 'by' and 'length.out' / 'along.with' must be specified
Backtrace:
▆
1. ├─base::seq(as.Date("2020-01-31"), length.out = 150L) at test_pipeop_datefeatures.R:17:3
2. └─base::seq.Date(as.Date("2020-01-31"), length.out = 150L)
── Error ('test_pipeop_nmf.R:45:3'): PipeOpNMF - does not modify search path when NMF is not loaded, fix for #929 ──
Error in `detach(package:generics)`: invalid 'name' argument
Backtrace:
▆
1. └─base::detach(package:generics) at test_pipeop_nmf.R:45:3
── Failure ('test_pipeop_nmf.R:73:3'): PipeOpNMF - does not modify search path when NMF is loaded, fix for #929 ──
Expected `all(...)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Failure ('test_pipeop_nmf.R:93:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Expected `all(paste0("package:", c("BiocGenerics", "generics")) %in% search())` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test_pipeop_nmf.R:98:3'): PipeOpNMF - does not modify search path when some of NMF's dependencies are loaded, fix for #929 ──
Error in `FUN(X[[i]], ...)`: invalid 'name' argument
This happened in PipeOp nmf's $train()
Backtrace:
▆
1. ├─op$train(list(tsk("iris"))) at test_pipeop_nmf.R:98:3
2. │ └─mlr3pipelines:::.__PipeOp__train(...)
3. │ ├─base::withCallingHandlers(...)
4. │ └─private$.train(input)
5. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train(...)
6. │ └─private$.train_task(intask)
7. │ └─mlr3pipelines:::.__PipeOpTaskPreproc__.train_task(...)
8. │ ├─data.table::as.data.table(...)
9. │ └─private$.train_dt(dt, task$levels(cols), task$truth())
10. │ └─mlr3pipelines:::.__PipeOpNMF__.train_dt(...)
11. │ └─mlr3misc::map(to_be_detached, detach, character.only = TRUE)
12. │ └─base::lapply(.x, .f, ...)
13. │ └─base (local) FUN(X[[i]], ...)
14. │ └─base::stop("invalid 'name' argument")
15. └─base::.handleSimpleError(...)
16. └─mlr3pipelines (local) h(simpleError(msg, call))
[ FAIL 6 | WARN 0 | SKIP 99 | PASS 13006 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-macos-x86_64
Version: 0.10.0
Check: tests
Result: ERROR
Running 'testthat.R' [276s]
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.
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: 2025-12-05 09:10:17.269554: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.270535: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.285775: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.310338: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:17.379008: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.37962: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.390467: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.407973: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:17.451409: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.452468: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.471692: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.509631: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:17.511396: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:17.552369: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.553087: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.588155: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.635238: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:17.63674: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:17.768119: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.768798: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:17.789241: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:17.89746: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:17.945532: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:17.946664: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.006027: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.245565: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:18.251105: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:18.476012: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:18.476689: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.487999: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.509757: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:18.6432: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:18.64429: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.666182: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.714406: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:18.716113: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:18.915012: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:18.915526: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:18.923468: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:18.943846: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.005978: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.006642: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.029213: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.08091: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.082849: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:19.211741: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.212383: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.222509: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.244268: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.314327: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.315242: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.333067: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.372758: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.3745: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:19.48358: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.484277: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.496862: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.519529: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.591323: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.592315: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.626329: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.676073: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.67789: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:19.769006: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.769498: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.780428: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.802959: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:19.87081: L-Isomap embed START
> test_pipeop_isomap.R: 2025-12-05 09:10:19.871714: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:19.891065: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:19.941783: embedding
> test_pipeop_isomap.R: 2025-12-05 09:10:19.943964: DONE
> test_pipeop_isomap.R: 2025-12-05 09:10:20.667826: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:20.668456: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:20.679931: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:20.697664: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:20.822275: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:20.823095: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:20.835371: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:20.858724: Classical Scaling
> test_pipeop_isomap.R: 2025-12-05 09:10:20.898576: Isomap START
> test_pipeop_isomap.R: 2025-12-05 09:10:20.89935: constructing knn graph
> test_pipeop_isomap.R: 2025-12-05 09:10:20.911428: calculating geodesic distances
> test_pipeop_isomap.R: 2025-12-05 09:10:20.934781: 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_encodelmer.R:15:3',
'test_pipeop_encodelmer.R:37:3', 'test_pipeop_encodelmer.R:80:3',
'test_pipeop_encodepl.R:5:3', 'test_pipeop_encodepl.R:72:3',
'test_pipeop_featureunion.R:9:3', 'test_pipeop_featureunion.R:134:3',
'test_pipeop_filter.R:7:3', 'test_pipeop_fixfactors.R:9:3',
'test_pipeop_histbin.R:7:3', 'test_pipeop_ica.R:7:3',
'test_pipeop_ensemble.R:6:3', 'test_pipeop_impute.R:4:3',
'test_pipeop_imputelearner.R:43:3', 'test_pipeop_isomap.R:10:3',
'test_pipeop_kernelpca.R:9:3', 'test_pipeop_learner.R:17:3',
'test_pipeop_info.R:6:3', 'test_pipeop_learnerpicvplus.R:163:3',
'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
'test_pipeop_multiplicityexply.R:9:3', 'test_pipeop_learnercv.R:31:3',
'test_pipeop_mutate.R:9:3', 'test_pipeop_multiplicityimply.R:9:3',
'test_pipeop_nearmiss.R:7:3', 'test_pipeop_ovr.R:9:3',
'test_pipeop_ovr.R:48:3', 'test_pipeop_pca.R:8:3',
'test_pipeop_proxy.R:14:3', 'test_pipeop_quantilebin.R:5:3',
'test_pipeop_randomprojection.R:6:3', 'test_pipeop_randomresponse.R:5:3',
'test_pipeop_removeconstants.R:6:3', 'test_pipeop_renamecolumns.R:6:3',
'test_pipeop_replicate.R:9:3', 'test_pipeop_nmf.R:6:3',
'test_pipeop_rowapply.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_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: 0.7240711')
`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