Last updated on 2026-06-08 02:51:10 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.0.4 | 13.21 | 103.88 | 117.09 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.0.4 | 9.84 | 60.65 | 70.49 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.0.4 | 23.00 | 166.19 | 189.19 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.0.4 | 22.00 | 169.81 | 191.81 | OK | |
| r-devel-windows-x86_64 | 0.0.4 | 12.00 | 122.00 | 134.00 | OK | |
| r-patched-linux-x86_64 | 0.0.4 | 15.22 | 99.08 | 114.30 | OK | |
| r-release-linux-x86_64 | 0.0.4 | 11.59 | 98.39 | 109.98 | OK | |
| r-release-macos-arm64 | 0.0.4 | 3.00 | 34.00 | 37.00 | OK | |
| r-release-macos-x86_64 | 0.0.4 | 10.00 | 129.00 | 139.00 | OK | |
| r-release-windows-x86_64 | 0.0.4 | 16.00 | 122.00 | 138.00 | OK | |
| r-oldrel-macos-arm64 | 0.0.4 | 3.00 | 52.00 | 55.00 | OK | |
| r-oldrel-macos-x86_64 | 0.0.4 | 9.00 | 119.00 | 128.00 | OK | |
| r-oldrel-windows-x86_64 | 0.0.4 | 18.00 | 146.00 | 164.00 | OK |
Version: 0.0.4
Check: examples
Result: ERROR
Running examples in ‘fuseMLR-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cobra
> ### Title: Cobra Meta Learner
> ### Aliases: cobra
>
> ### ** Examples
>
> # Example usage
> set.seed(123)
> x_train <- data.frame(a = runif(10L), b = runif(10L))
> y_train <- sample(0L:1L, size = 10L, replace = TRUE)
>
> # Train the model with epsilon optimization
> cobra_model <- cobra(x = x_train, y = y_train, tune = "epsilon", k_folds = 2)
Tuning 'epsilon' via cross-validation with 2 folds.
>
> # Make predictions on new data
> set.seed(156)
> x_new <- data.frame(a = runif(5L), b = runif(5L))
> prediction <- predict(object = cobra_model, data = x_new)
Error in loadNamespace(x) : there is no package called ‘caret’
Calls: predict ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.0.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [7s/10s]
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.
Variable selection on layer geneexpr done.
Layer variable
1 geneexpr BRAF
2 geneexpr PEA15
3 geneexpr SHC1
VarSel : varsel_geneexpr
TrainLayer : geneexpr
Package : Boruta
Function : Boruta
Tuning 'epsilon' via cross-validation with 5 folds.
Saving _problems/test-cobra-11.R
Tuning 'alpha' and 'epsilon' via cross-validation with 5 folds.
Saving _problems/test-cobra-20.R
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.
Saving _problems/test-cobra-132.R
Tuning 'alpha' and 'epsilon' via cross-validation with 10 folds.
Saving _problems/test-cobra-141.R
[ FAIL 4 | WARN 1 | SKIP 3 | PASS 169 ]
══ Skipped tests (3) ═══════════════════════════════════════════════════════════
• On CRAN (2): 'test-TrainMetaLayer.R:60:5', 'test-VarSel.R:45:5'
• {caret} is not installed. (1): 'test-Training.R:183:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-cobra.R:4:3'): cobra works ───────────────────────────────────
Expected `{ ... }` not to throw any errors.
Actually got a <packageNotFoundError> with message:
there is no package called 'caret'
── Failure ('test-cobra.R:13:3'): cobra works ──────────────────────────────────
Expected `{ ... }` not to throw any errors.
Actually got a <packageNotFoundError> with message:
there is no package called 'caret'
── Failure ('test-cobra.R:125:3'): cobra works ─────────────────────────────────
Expected `{ ... }` not to throw any errors.
Actually got a <packageNotFoundError> with message:
there is no package called 'caret'
── Failure ('test-cobra.R:134:3'): cobra works ─────────────────────────────────
Expected `{ ... }` not to throw any errors.
Actually got a <packageNotFoundError> with message:
there is no package called 'caret'
[ FAIL 4 | WARN 1 | SKIP 3 | PASS 169 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.0.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘fuseMLR.Rmd’ using rmarkdown
Quitting from fuseMLR.Rmd:184-188 [lrner_train]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `loadNamespace()`:
! there is no package called 'caret'
---
Backtrace:
▆
1. ├─fuseMLR::fusemlr(training = training, use_var_sel = TRUE)
2. │ └─training$train(...)
3. │ └─self$createMetaTrainData(...)
4. │ ├─base::do.call(eval(parse(text = resampling_method)), resampling_arg)
5. │ └─base::eval(parse(text = resampling_method))
6. │ └─base::eval(parse(text = resampling_method))
7. └─base::loadNamespace(x)
8. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
9. └─base (local) withOneRestart(expr, restarts[[1L]])
10. └─base (local) doWithOneRestart(return(expr), restart)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'fuseMLR.Rmd' failed with diagnostics:
there is no package called 'caret'
--- 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-debian-gcc