Package: FuzzyImputationTest
Check: tests
New result: ERROR
    Running ‘testthat.R’ [5s/5s]
  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(FuzzyImputationTest)
    > 
    > test_check("FuzzyImputationTest")
    [ FAIL 1 | WARN 0 | SKIP 15 | PASS 80 ]
    
    ══ Skipped tests (15) ══════════════════════════════════════════════════════════
    • On CRAN (15): 'test-ApplyStatisticalTests.R:152:3',
      'test-CalculateFuzzyMeasures.R:152:3', 'test-ErrorMatrix.R:141:3',
      'test-FuzzifyMatrix.R:7:3', 'test-FuzzyImputation.R:30:3',
      'test-FuzzyNumbersToMatrix.R:16:3', 'test-ImputationDimp.R:30:3',
      'test-ImputationTests.R:152:3', 'test-IntroducingNA.R:7:3',
      'test-MatrixToFuzzyNumbers.R:14:3', 'test-MeasureAHD.R:26:3',
      'test-MeasureEuclidean.R:26:3', 'test-MeasureHSD.R:26:3',
      'test-RemoveNotFuzzy.R:50:3', 'test-StatisticalMeasures.R:152:3'
    
    ══ Failed tests ════════════════════════════════════════════════════════════════
    ── Error ('test-MethodsComparison.R:61:3'): Function returns correct values ────
    Error in `ranger::ranger(x = obsX, y = obsY, num.trees = ntree, mtry = mtry, 
        replace = replace, sample.fraction = sf, min.bucket = if (!is.null(nodesize)) nodesize[1] else 5, 
        write.forest = TRUE, oob.error = TRUE, num.threads = if (!is.null(num.threads)) num.threads else if (parallelize == 
            "forests") foreach::getDoParWorkers() else NULL, verbose = FALSE)`: Error: No covariates found.
    Backtrace:
        ▆
     1. └─testthat::expect_snapshot(...) at test-MethodsComparison.R:61:3
     2.   └─rlang::cnd_signal(state$error)
    
    [ FAIL 1 | WARN 0 | SKIP 15 | PASS 80 ]
    Error: Test failures
    Execution halted

Package: promor
Check: tests
New result: ERROR
    Running ‘testthat.R’ [8s/8s]
  Running the tests in ‘tests/testthat.R’ failed.
  Complete output:
    > library(testthat)
    > library(promor)
    > 
    > test_check("promor")
    0 empty row(s) removed.
    2 empty column(s) removed.
    1 protein(s) (rows) only identified by site removed.
    4 protein(s) identified by 2 or fewer unique peptides removed.
    Zeros have been replaced with NAs.
    Data have been log-transformed.
    4 proteins with higher than 33% NAs in at least one group removed.
    0 empty row(s) removed.
    4 empty column(s) removed.
    10 protein contaminant(s) (rows) removed.
    0 protein(s) identified by 2 or fewer unique peptides removed.
    Zeros have been replaced with NAs.
    Data have been log-transformed.
      missForest iteration 1 in progress...done!
        estimated error(s): 1.04084 
        difference(s): 0.0005251996 
        time: 0.013 seconds
    
      missForest iteration 2 in progress...done!
        estimated error(s): 1.067432 
        difference(s): 0.002956259 
        time: 0.007 seconds
    
     b  c  b  c 
    20 22 39 82 
     a  c  a  c 
    11 22 83 82 
     a  b  a  b 
    11 20 83 39 
    change in estimate:  0.02415548 
    change in estimate:  0.02101209 
    change in estimate:  0.01821531 
    change in estimate:  0.0157772 
    change in estimate:  0.01367284 
    change in estimate:  0.01186459 
    change in estimate:  0.01031291 
    change in estimate:  0.008980791 
    1 siginificantly differentially expressed proteins found.
    
    Testing glm...
    
    
    Testing rf...
    
    
    Testing svmRadial...
    
    
    Done!
    [ FAIL 1 | WARN 0 | SKIP 0 | PASS 21 ]
    
    ══ Failed tests ════════════════════════════════════════════════════════════════
    ── Failure ('test-protein_analysis.R:336:3'): impute_na works for rf ───────────
    impute_na(df, method = "RF", seed = 327) (`actual`) not equal to `df_rf` (`expected`).
    
    actual vs expected
                           a        b      c
    - actual[1, ]   12.00000 29.33333 82.000
    + expected[1, ] 12.00000 26.60000 82.000
    - actual[2, ]   34.00000 29.33333 40.000
    + expected[2, ] 34.00000 32.15000 40.000
      actual[3, ]   11.00000 39.00000 22.000
    - actual[4, ]   83.00000 29.00000 50.350
    + expected[4, ] 83.00000 29.00000 53.125
    - actual[5, ]   42.09000 20.00000 50.350
    + expected[5, ] 62.16333 20.00000 66.025
    - actual[6, ]   67.00000 29.33333 70.000
    + expected[6, ] 67.00000 22.30000 70.000
    
      `actual$a[2:6]`: 34.0 11.0 83.0 42.1 67.0
    `expected$a[2:6]`: 34.0 11.0 83.0 62.2 67.0
    
      `actual$b`: 29.3 29.3 39.0 29.0 20.0 29.3
    `expected$b`: 26.6 32.1 39.0 29.0 20.0 22.3
    
      `actual$c`: 82.0 40.0 22.0 50.4 50.4 70.0
    `expected$c`: 82.0 40.0 22.0 53.1 66.0 70.0
    Backtrace:
        ▆
     1. ├─base::suppressWarnings(...) at test-protein_analysis.R:336:3
     2. │ └─base::withCallingHandlers(...)
     3. └─testthat::expect_equal(...)
    
    [ FAIL 1 | WARN 0 | SKIP 0 | PASS 21 ]
    Error: Test failures
    Execution halted