R Under development (unstable) (2025-08-31 r88749 ucrt) -- "Unsuffered Consequences"
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> # 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(MicrobTiSDA)
> 
> test_check("MicrobTiSDA")
==================================================================================

Call:
 randomForest(formula = group ~ ., data = otu_train, importance = TRUE) 
               Type of random forest: classification
                     Number of trees: 500
No. of variables tried at each split: 14

        OOB estimate of  error rate: 8.11%
Confusion matrix:
        Control Sepsis class.error
Control      18      0   0.0000000
Sepsis        3     16   0.1578947
==================================================================================

=========Classification results of the classifier on the training dataset=========
         Predicted
Actural   Control Sepsis
  Control      18      0
  Sepsis        0     19
==================================================================================

==========Classification results of the classifier on the testing dataset=========
         Predicted
Actural   Control Sepsis
  Control       7      0
  Sepsis        1      6
==================================================================================
Square root transformation
Wisconsin double standardization
Run 0 stress 0.08352557 
Run 1 stress 0.1017054 
Run 2 stress 0.09730974 
Run 3 stress 0.08352557 
... New best solution
... Procrustes: rmse 6.592384e-06  max resid 2.773812e-05 
... Similar to previous best
Run 4 stress 0.1086 
Run 5 stress 0.1184539 
Run 6 stress 0.1268487 
Run 7 stress 0.1250471 
Run 8 stress 0.0905587 
Run 9 stress 0.1076963 
Run 10 stress 0.1026105 
Run 11 stress 0.09460812 
Run 12 stress 0.1097049 
Run 13 stress 0.1138676 
Run 14 stress 0.1189311 
Run 15 stress 0.1159954 
Run 16 stress 0.0905587 
Run 17 stress 0.0964984 
Run 18 stress 0.08983798 
Run 19 stress 0.08597992 
Run 20 stress 0.1193368 
*** Best solution repeated 1 times
==================================================================================

Call:
 randomForest(formula = group ~ ., data = otu_train, importance = TRUE) 
               Type of random forest: classification
                     Number of trees: 500
No. of variables tried at each split: 14

        OOB estimate of  error rate: 8.11%
Confusion matrix:
        Control Sepsis class.error
Control      18      0   0.0000000
Sepsis        3     16   0.1578947
==================================================================================

=========Classification results of the classifier on the training dataset=========
         Predicted
Actural   Control Sepsis
  Control      18      0
  Sepsis        0     19
==================================================================================

==========Classification results of the classifier on the testing dataset=========
         Predicted
Actural   Control Sepsis
  Control       7      0
  Sepsis        1      6
==================================================================================
==================================================================================

Call:
 randomForest(formula = group ~ ., data = otu_train, importance = TRUE) 
               Type of random forest: classification
                     Number of trees: 500
No. of variables tried at each split: 14

        OOB estimate of  error rate: 8.11%
Confusion matrix:
        Control Sepsis class.error
Control      18      0   0.0000000
Sepsis        3     16   0.1578947
==================================================================================

=========Classification results of the classifier on the training dataset=========
         Predicted
Actural   Control Sepsis
  Control      18      0
  Sepsis        0     19
==================================================================================

==========Classification results of the classifier on the testing dataset=========
         Predicted
Actural   Control Sepsis
  Control       7      0
  Sepsis        1      6
==================================================================================
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 40 ]
> 
> proc.time()
   user  system elapsed 
  46.09    2.59   48.68