Running ‘testthat.R’ [488s/242s]
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: 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-depr
  > test_mlr_graphs_robustify.R: ecated").
  > test_multiplicities.R: 
  > test_multiplicities.R: [[1]]
  > test_multiplicities.R: 
  > test_multiplicities.R: [1]
  > test_multiplicities.R:  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"
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.591216: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.593428: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.603933: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.62289: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.677984: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.67846: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.68585: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.703682: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.73178: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.732453: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.74637: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.788973: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.790092: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.822519: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.822989: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.838827: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.879396: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.880697: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.973358: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:33.973804: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.011797: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.107509: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.144359: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.145037: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.170583: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.36366: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.367803: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.519492: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.519962: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.527302: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.54808: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.582989: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.583663: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.598642: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.637562: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.640276: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.789925: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.790399: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.79993: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.818546: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.871274: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.871939: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.887447: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.929173: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:34.930439: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.036318: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.036798: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.045685: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.065105: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.141524: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.142203: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.156051: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.19831: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.1995: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.284963: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.285413: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.294199: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.312884: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.369542: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.370255: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.384516: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.426895: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.428144: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.516328: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.516793: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.5258: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.544499: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.601755: L-Isomap embed START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.602459: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.616527: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.658291: embedding
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.659514: DONE
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.759002: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.759484: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.767092: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.787857: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.880538: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.881011: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.902294: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.921105: Classical Scaling
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.947976: Isomap START
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.948458: constructing knn graph
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.955863: calculating geodesic distances
  > test_pipeop_isomap.R: 2026-02-03 04:51:35.97501: 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: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: Training debug_affectcols
  > test_pipeop_task_preproc.R: 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_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 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_colapply.R:9:3', 'test_pipeop_collapsefactors.R:6:3',
    '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_learnercv.R:31:3',
    'test_pipeop_missind.R:6:3', 'test_pipeop_modelmatrix.R:7:3',
    '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_subsample.R:6:3', '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_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: 0.2819739')
  `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