Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 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", reporter = LocationReporter)
  Start test: HLLE
    test_HLLE.R:4:3 [success]
  End test: HLLE
  
  Start test: general data conversions
    test_ICA.R:6:5 [success]
    test_ICA.R:9:5 [success]
    test_ICA.R:11:5 [success]
    test_ICA.R:13:5 [success]
    test_ICA.R:15:5 [success]
    test_ICA.R:21:5 [success]
  End test: general data conversions
  
  Start test: 2D projection
    test_NNMF.R:22:3 [success]
    test_NNMF.R:42:3 [success]
    test_NNMF.R:61:3 [success]
    test_NNMF.R:62:3 [success]
  End test: 2D projection
  
  Start test: other arguments
    test_NNMF.R:107:3 [success]
    test_NNMF.R:108:3 [success]
    test_NNMF.R:134:3 [success]
    test_NNMF.R:135:3 [success]
  End test: other arguments
  
  Start test: Bad args
    test_NNMF.R:142:3 [success]
    test_NNMF.R:143:3 [success]
    test_NNMF.R:145:3 [success]
    test_NNMF.R:147:3 [success]
  End test: Bad args
  
  Start test: Full_rank
    test_NNMF.R:156:3 [success]
  End test: Full_rank
  
  Start test: general data conversions
    test_PCA.R:6:5 [success]
    test_PCA.R:18:5 [success]
    test_PCA.R:19:5 [success]
    test_PCA.R:20:5 [success]
    test_PCA.R:21:5 [success]
    test_PCA.R:23:5 [success]
    test_PCA.R:24:5 [success]
    test_PCA.R:25:5 [success]
    test_PCA.R:26:5 [success]
    test_PCA.R:28:5 [success]
    test_PCA.R:29:5 [success]
    test_PCA.R:30:5 [success]
    test_PCA.R:31:5 [success]
    test_PCA.R:33:5 [success]
    test_PCA.R:38:5 [success]
    test_PCA.R:43:5 [success]
    test_PCA.R:48:5 [success]
    test_PCA.R:55:5 [success]
    test_PCA.R:59:5 [success]
    test_PCA.R:63:5 [success]
    test_PCA.R:67:5 [success]
  End test: general data conversions
  
  Start test: general data conversions
    test_PCA_L1.R:7:5 [success]
    test_PCA_L1.R:19:5 [success]
    test_PCA_L1.R:20:5 [success]
    test_PCA_L1.R:21:5 [success]
    test_PCA_L1.R:22:5 [success]
    test_PCA_L1.R:24:5 [success]
    test_PCA_L1.R:25:5 [success]
    test_PCA_L1.R:26:5 [success]
    test_PCA_L1.R:27:5 [success]
    test_PCA_L1.R:29:5 [success]
    test_PCA_L1.R:30:5 [success]
    test_PCA_L1.R:31:5 [success]
    test_PCA_L1.R:32:5 [success]
    test_PCA_L1.R:34:5 [success]
    test_PCA_L1.R:39:5 [success]
    test_PCA_L1.R:44:5 [success]
    test_PCA_L1.R:49:5 [success]
    test_PCA_L1.R:56:5 [success]
    test_PCA_L1.R:63:5 [success]
    test_PCA_L1.R:70:5 [success]
    test_PCA_L1.R:76:5 [success]
    test_PCA_L1.R:83:5 [success]
  End test: general data conversions
  
  Start test: high level functions working?
    test_all.R:23:11 [error]
  End test: high level functions working?
  
  Start test: Check if tensorflow is installed correctly.
    test_autoencoder.R:16:3 [skip]
  End test: Check if tensorflow is installed correctly.
  
  Start test: Check errors when building autoencoder.
    test_autoencoder.R:35:3 [skip]
  End test: Check errors when building autoencoder.
  
  Start test: using autoencoder with parameters
    test_autoencoder.R:53:5 [skip]
  End test: using autoencoder with parameters
  
  Start test: using autoencoder with autoencoder results
    test_autoencoder.R:136:5 [skip]
  End test: using autoencoder with autoencoder results
  
  Start test: using autoencoder with keras
    test_autoencoder.R:164:3 [skip]
  End test: using autoencoder with keras
  
  Start test: datasets load
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
    test_dataSets.R:7:9 [success]
  End test: datasets load
  
  Start test: DiffusionMaps
    test_diffmap.R:4:3 [error]
  End test: DiffusionMaps
  
  Start test: constructor
    test_dimRedData.R:5:5 [success]
    test_dimRedData.R:9:5 [success]
    test_dimRedData.R:10:5 [success]
    test_dimRedData.R:11:5 [success]
    test_dimRedData.R:12:5 [success]
  End test: constructor
  
  Start test: conversion functions
    test_dimRedData.R:16:5 [success]
    test_dimRedData.R:17:5 [success]
    test_dimRedData.R:18:5 [success]
    test_dimRedData.R:20:5 [success]
  End test: conversion functions
  
  Start test: misc functions
    test_dimRedData.R:28:5 [success]
    test_dimRedData.R:29:5 [success]
    test_dimRedData.R:32:5 [success]
    test_dimRedData.R:33:5 [success]
    test_dimRedData.R:34:5 [success]
    test_dimRedData.R:35:5 [success]
  End test: misc functions
  
  Start test: pars matching
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:6:9 [success]
    test_dimRedMethod-class.R:15:5 [success]
  End test: pars matching
  
  Start test: predict/inverse methods
    test_dimRedResult.R:9:3 [success]
    test_dimRedResult.R:10:3 [success]
    test_dimRedResult.R:13:3 [success]
    test_dimRedResult.R:14:3 [success]
  End test: predict/inverse methods
  
  Start test: conversion
    test_dimRedResult.R:19:3 [success]
  End test: conversion
  
  Start test: drr forward and backward passes
    test_drr.R:9:5 [warning]
    test_drr.R:9:5 [warning]
    test_drr.R:9:5 [warning]
    test_drr.R:9:5 [warning]
    test_drr.R:9:5 [warning]
    test_drr.R:9:5 [warning]
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    test_drr.R:9:5 [warning]
    test_drr.R:11:5 [success]
    test_drr.R:15:5 [success]
  End test: drr forward and backward passes
  
  Start test: standard method is PCA
    test_embed.R:7:3 [success]
  End test: standard method is PCA
  
  Start test: check vs vegan isomap
    test_isomap.R:17:5 [error]
  End test: check vs vegan isomap
  
  Start test: check other.data
    test_isomap.R:45:3 [error]
  End test: check other.data
  
  Start test: general data conversions
    test_kPCA.R:8:5 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:56:13 [success]
    test_kPCA.R:84:5 [success]
  End test: general data conversions
  
  Start test: squared euclidean distance
    test_misc.R:9:5 [success]
  End test: squared euclidean distance
  
  Start test: formula functions
    test_misc.R:16:5 [success]
    test_misc.R:17:5 [success]
  End test: formula functions
  
  Start test: makeEpsGraph
    test_misc.R:29:5 [success]
    test_misc.R:30:5 [success]
    test_misc.R:31:5 [success]
  End test: makeEpsGraph
  
  Start test: getRotationMatrixFail
    test_misc.R:37:3 [success]
    test_misc.R:41:3 [success]
  End test: getRotationMatrixFail
  
  Start test: quality
    test_quality.R:24:5 [success]
    test_quality.R:24:5 [success]
    test_quality.R:24:5 [success]
    test_quality.R:24:5 [success]
    test_quality.R:24:5 [success]
    test_quality.R:24:5 [success]
    test_quality.R:24:5 [success]
  End test: quality
  
  Start test: Q_local ndim
    test_quality.R:35:5 [success]
  End test: Q_local ndim
  
  Start test: rmse_by_ndim
    test_quality.R:43:3 [warning]
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    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:43:3 [warning]
    test_quality.R:52:5 [success]
    test_quality.R:52:5 [success]
    test_quality.R:52:5 [success]
    test_quality.R:52:5 [success]
    test_quality.R:60:3 [success]
    test_quality.R:61:3 [success]
  End test: rmse_by_ndim
  
  Start test: AUC_lnK_R_NX
    test_quality.R:72:3 [warning]
    test_quality.R:72:3 [success]
    test_quality.R:73:3 [warning]
    test_quality.R:73:3 [success]
    test_quality.R:74:3 [warning]
    test_quality.R:74:3 [success]
    test_quality.R:75:3 [warning]
    test_quality.R:75:3 [success]
    test_quality.R:77:3 [success]
    test_quality.R:78:3 [success]
  End test: AUC_lnK_R_NX
  
  Start test: UMAP python
    test_umap.R:11:3 [skip]
  End test: UMAP python
  
  Start test: UMAP R
    test_umap.R:23:3 [success]
    test_umap.R:24:3 [success]
    test_umap.R:25:3 [success]
    test_umap.R:26:3 [success]
    test_umap.R:27:3 [success]
    test_umap.R:28:3 [success]
  End test: UMAP R
  
  Error: Test failures
  Execution halted