R Under development (unstable) (2025-04-21 r88169 ucrt) -- "Unsuffered Consequences"
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> library(testthat)
> library(dimRed)
Loading required package: DRR
Loading required package: kernlab
Loading required package: CVST
Loading required package: Matrix

Attaching package: 'dimRed'

The following object is masked from 'package:stats':

    embed

The following object is masked from 'package:base':

    as.data.frame

> 
> test_check("dimRed")
embedding: DiffusionMaps
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: DRR
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: FastICA
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: KamadaKawai
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: DrL
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: FruchtermanReingold
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: HLLE
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: Isomap
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: kPCA
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: PCA_L1
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: MDS
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: nMDS
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: NNMF
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: PCA
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: tSNE
  quality: Q_local
  quality: Q_global
  quality: mean_R_NX
  quality: AUC_lnK_R_NX
  quality: total_correlation
  quality: cophenetic_correlation
  quality: distance_correlation
  quality: reconstruction_rmse
embedding: UMAP
2025-04-22 19:47:21.525297: Isomap START
2025-04-22 19:47:21.525634: constructing knn graph
2025-04-22 19:47:21.528179: calculating geodesic distances
2025-04-22 19:47:21.536307: Classical Scaling
2025-04-22 19:47:21.5496: Isomap START
2025-04-22 19:47:21.549861: constructing knn graph
2025-04-22 19:47:21.552145: calculating geodesic distances
2025-04-22 19:47:21.559736: Classical Scaling
2025-04-22 19:47:21.586816: Calculating kernel PCA
2025-04-22 19:47:21.617707: Trying to calculate reverse
2025-04-22 19:47:21.622291: DONE
2025-04-22 19:47:21.624229: Calculating kernel PCA
2025-04-22 19:47:21.636165: Trying to calculate reverse
2025-04-22 19:47:21.641332: DONE
2025-04-22 19:47:21.643288: Calculating kernel PCA
2025-04-22 19:47:21.654884: Trying to calculate reverse
No inverse function.
2025-04-22 19:47:21.659693: DONE
2025-04-22 19:47:21.661585: Calculating kernel PCA
2025-04-22 19:47:21.881785: Trying to calculate reverse
2025-04-22 19:47:21.884949: DONE
2025-04-22 19:47:21.887317: Calculating kernel PCA
2025-04-22 19:47:21.902479: Trying to calculate reverse
2025-04-22 19:47:21.910354: DONE
2025-04-22 19:47:21.912325: Calculating kernel PCA
2025-04-22 19:47:21.926613: Trying to calculate reverse
2025-04-22 19:47:21.933759: DONE
2025-04-22 19:47:21.935662: Calculating kernel PCA
2025-04-22 19:47:21.954553: Trying to calculate reverse
2025-04-22 19:47:21.966372: DONE
2025-04-22 19:47:21.968163: Calculating kernel PCA
2025-04-22 19:47:21.991295: Trying to calculate reverse
2025-04-22 19:47:22.01285: DONE
2025-04-22 19:47:22.0149: Calculating kernel PCA
2025-04-22 19:47:22.079287: Trying to calculate reverse
No inverse function.
2025-04-22 19:47:22.547364: DONE
2025-04-22 19:47:22.557423: Calculating kernel PCA
2025-04-22 19:47:22.667707: Trying to calculate reverse
No inverse function.
2025-04-22 19:47:23.089255: DONE
[ FAIL 0 | WARN 0 | SKIP 2 | PASS 186 ]

══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• On CRAN (1): 'test_NNMF.R:65:3'
• umap-learn not available, install with `pip install umap-learn==0.4` (1):
  'test_UMAP.R:12:3'

[ FAIL 0 | WARN 0 | SKIP 2 | PASS 186 ]
> 
> proc.time()
   user  system elapsed 
  51.15    1.93   62.25