Last updated on 2026-05-16 16:50:10 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.0.2 | 12.44 | 105.36 | 117.80 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.0.2 | 8.20 | 78.83 | 87.03 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.0.2 | 24.00 | 115.11 | 139.11 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.0.2 | 23.00 | 172.33 | 195.33 | OK | |
| r-devel-windows-x86_64 | 0.0.2 | 13.00 | 118.00 | 131.00 | OK | |
| r-patched-linux-x86_64 | 0.0.2 | 15.40 | 99.71 | 115.11 | OK | |
| r-release-linux-x86_64 | 0.0.2 | 10.69 | 99.38 | 110.07 | OK | |
| r-release-macos-arm64 | 0.0.2 | 3.00 | 33.00 | 36.00 | OK | |
| r-release-macos-x86_64 | 0.0.2 | 9.00 | 102.00 | 111.00 | OK | |
| r-release-windows-x86_64 | 0.0.2 | 15.00 | 120.00 | 135.00 | OK | |
| r-oldrel-macos-arm64 | 0.0.2 | OK | ||||
| r-oldrel-macos-x86_64 | 0.0.2 | 9.00 | 111.00 | 120.00 | OK | |
| r-oldrel-windows-x86_64 | 0.0.2 | 15.00 | 140.00 | 155.00 | OK |
Version: 0.0.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [21s/27s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(fuseMLR)
>
> test_check("fuseMLR")
Class : Data
name : geneexpr
ind. id. : IDS
n : 49
p : 132
Class: HashTable
id: test
-----------------
[1] key class
<0 rows> (or 0-length row.names)
Learner : ranger
TrainLayer : geneexpr
Package : ranger
Learn function : ranger
Training of base model on layer geneexpr started.
Training of base model on layer geneexpr done.
Class : Model
Learner info.
-----------------------
Learner : ranger
TrainLayer : geneexpr
Package : ranger
Learn function : ranger
Train data info.
-----------------------
TrainData : geneexpr
Layer : geneexpr
ind. id. : IDS
target : disease
n : 50
Missing : 0
p : 131
TrainLayer : geneexpr
Status : Not trained
Empty layer.
TrainData : methylation
Layer : methylation
ind. id. : IDS
target : disease
n : 50
Missing : 0
p : 367
Layer geneexpr
----------------
TrainLayer : geneexpr
Status : Not trained
Empty layer.
----------------
Object(s) on layer geneexpr
Empty layer
Layer geneexpr
----------------
TrainLayer : geneexpr
Status : Not trained
Nb. of objects stored : 3
----------------
Object(s) on layer geneexpr
----------------
Learner : ranger
TrainLayer : geneexpr
Package : ranger
Learn function : ranger
----------------
----------------
VarSel : varsel_geneexpr
TrainLayer : geneexpr
Package : Boruta
Function : Boruta
----------------
----------------
TrainData : geneexpr
Layer : geneexpr
Ind. id. : IDS
Target : disease
n : 50
Missing : 0
p : 131
----------------
Training of base model on layer geneexpr started.
Training of base model on layer geneexpr done.
Layer geneexpr
----------------
TrainLayer : geneexpr
Status : Trained
Nb. of objects stored : 4
----------------
Object(s) on layer geneexpr
----------------
Learner : ranger
TrainLayer : geneexpr
Package : ranger
Learn function : ranger
----------------
----------------
VarSel : varsel_geneexpr
TrainLayer : geneexpr
Package : Boruta
Function : Boruta
----------------
----------------
TrainData : geneexpr
Layer : geneexpr
Ind. id. : IDS
Target : disease
n : 50
Missing : 0
p : 131
----------------
TrainMetaLayer : meta
Status : Not trained
Empty layer.
MetaLayer
----------------
TrainMetaLayer : meta
Status : Not trained
Empty layer.
----------------
Object(s) on MetaLayer
Empty layer
Training : training
Problem type : classification
Status : Not trained
Number of layers: 0
Layers trained : 0
Variable selection on layer geneexpr started.
Saving _problems/test-Training-148.R
VarSel : varsel_geneexpr
TrainLayer : geneexpr
Package : Boruta
Function : Boruta
Tuning 'epsilon' via cross-validation with 5 folds.
Optimal epsilon: 0.071. Tuning with 5 folds.
Tuning 'alpha' and 'epsilon' via cross-validation with 5 folds.
Optimal alpha: 1 (1 Learner(s)). Optimal epsilon: 0.313. Tuning with 5 folds.
Using user-defined 'epsilon' = 0.1.
Tuning 'epsilon' via cross-validation with 10 folds.
Tuning 'epsilon' via cross-validation with 10 folds.
Tuning 'epsilon' via cross-validation with 10 folds.
Tuning 'epsilon' via cross-validation with 10 folds.
Tuning 'epsilon' via cross-validation with 10 folds.
Tuning 'epsilon' via cross-validation with 10 folds.
Optimal epsilon: 0.669. Tuning with 10 folds.
Tuning 'alpha' and 'epsilon' via cross-validation with 10 folds.
Optimal alpha: 1 (1 Learner(s)). Optimal epsilon: 0.217. Tuning with 10 folds.
[ FAIL 1 | WARN 3 | SKIP 2 | PASS 170 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• On CRAN (2): 'test-TrainMetaLayer.R:60:5', 'test-VarSel.R:43:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-Training.R:148:5'): Training: all tests ────────────────────────
Error in `fru::fru(x, y, trees = trees, importance = TRUE, threads = threads, ...)`: unused arguments (num.trees = 50, mtry = 3)
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-Training.R:141:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─training$varSelection() at test-Training.R:148:5
8. └─layer$varSelection(ind_subset = ind_subset, verbose = self$getVerbose())
9. └─varsel$varSelection(ind_subset = ind_subset)
10. ├─base::do.call(eval(parse(text = varsel)), varsel_param)
11. ├─Boruta (local) `<fn>`(num.trees = 50L, mtry = 3L, x = `<df[,131]>`, y = `<fct>`)
12. └─Boruta:::Boruta.default(...)
13. └─Boruta (local) addShadowsAndGetImp(decReg, runs)
14. └─Boruta (local) getImp(cbind(x[, decReg != "Rejected"], xSha), y, ...)
15. └─fru::importance(...)
[ FAIL 1 | WARN 3 | SKIP 2 | PASS 170 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.0.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘fuseMLR.Rmd’ using rmarkdown
Quitting from fuseMLR.Rmd:162-167 [varsel]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `fru::fru()`:
! unused arguments (num.trees = 1000, mtry = 3, probability = TRUE)
---
Backtrace:
▆
1. └─fuseMLR::varSelection(training = training)
2. └─training$varSelection(ind_subset = ind_subset, verbose = training$getVerbose())
3. └─layer$varSelection(ind_subset = ind_subset, verbose = self$getVerbose())
4. └─varsel$varSelection(ind_subset = ind_subset)
5. ├─base::do.call(eval(parse(text = varsel)), varsel_param)
6. ├─Boruta (local) `<fn>`(...)
7. └─Boruta:::Boruta.default(...)
8. └─Boruta (local) addShadowsAndGetImp(decReg, runs)
9. └─Boruta (local) getImp(cbind(x[, decReg != "Rejected"], xSha), y, ...)
10. └─fru::importance(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'fuseMLR.Rmd' failed with diagnostics:
unused arguments (num.trees = 1000, mtry = 3, probability = TRUE)
--- failed re-building ‘fuseMLR.Rmd’
SUMMARY: processing the following file failed:
‘fuseMLR.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang