R Under development (unstable) (2025-08-17 r88631 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(topolow)
> 
> test_check("topolow")
=== TOPOLOW AUTOMATIC EUCLIDEAN EMBEDDING ===
Dataset size: 10 x 10 
Missing values: 0 ( 0 %)
Using 1 cores
Output directory: D:\temp\2025_08_18_20_15_17_30847\RtmpKQhRj5\file1ad445d925237/standard 

Step 1: Assessing data characteristics...
  Non-Euclidean deviation score: 0.337 
    (Higher values indicate greater deviation from Euclidean geometry.
     Values > 0.1 suggest significant non-Euclidean structure.)
  Dimensions for 90% variance: 4 

Step 2: Initial parameter optimization...
  Initial optimization completed successfully
  Best initial MAE: 18.6928 
  Parameters are in log scale for adaptive sampling

Step 3: Adaptive parameter refinement...
  WARNING: Adaptive sampling failed: one node produced an error: need at least two non-NA values to interpolate 
  Continuing with initial optimization results
  Adaptive refinement completed successfully
  Optimal parameters found:
    - Dimensions: 2 
    - k0: 16.3381 
    - cooling_rate: 0.007262 
    - c_repulsion: 0.814188 
    - Cross-validation MAE: 18.6928 
  We recommend saving these parameters to set better ranges and 
  reduced iterations in future runs. It saves time.
  This may indicate the need for wider parameter ranges in future runs.

Step 4: Running final embedding with optimal parameters...
  Embedding completed successfully
  Final MAE: 13.1598 
  Iterations: 15 
  Convergence achieved: TRUE 

Cleaned up intermediate files

=== EUCLIDIFY COMPLETED ===
Total runtime: 1.5 seconds
Final embedding dimensions: 2 
Final MAE: 13.1598 
Output saved to: D:\temp\2025_08_18_20_15_17_30847\RtmpKQhRj5\file1ad44728385c.csv
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 358 ]

[ FAIL 0 | WARN 1 | SKIP 0 | PASS 358 ]
Warning messages:
1: In for (i in seq_len(n)) { :
  closing unused connection 5 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11609)
2: In .Internal(gc(verbose, reset, full)) :
  closing unused connection 5 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11609)
3: In for (i in seq_len(n)) { :
  closing unused connection 5 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11609)
4: In for (i in seq_len(n)) { :
  closing unused connection 5 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11609)
5: In for (i in seq_along(e)[-1L]) if (!is.null(e[[i]])) e[[i]] = replace_dot_alias(e[[i]]) :
  closing unused connection 5 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11609)
6: In .Internal(gc(verbose, reset, full)) :
  closing unused connection 5 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11609)
7: closing unused connection 5 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11609) 
> 
> proc.time()
   user  system elapsed 
  16.12    0.81   30.50