Running ‘testthat.R’ [22s/35s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > test_check("Cyclops")
  Loading required package: Cyclops
  Sorting outcomes by stratumId and rowId
  Sorting covariates by covariateId, stratumId, and rowId
  Sorting outcomes by stratumId and rowId
  Sorting covariates by covariateId, stratumId, and rowId
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sparseness = 75.675 %
  Sparseness = 98.96 %
  Sorting covariates by covariateId and rowId
  Sorting covariates by covariateId and rowId
  Sorting covariates by covariateId and rowId
  Sparseness = 98.96 %
  Sorting outcomes by rowId
  Sorting covariates by covariateId and rowId
  Sparseness = 76.15 %
  Sorting covariates by covariateId and rowId
  Sparseness = 75.68 %
  Sorting covariates by covariateId and rowId
  Sparseness = 76.3 %
  Sorting covariates by covariateId and rowId
  Sparseness = 76.05 %
  Sorting covariates by covariateId and rowId
  Sparseness = 76.4 %
  Sorting covariates by covariateId and rowId
  Analysis took 0.0354 secs ( 4.6e-05  )
  Fitting model using clogit
  Analysis took 0.401 secs
  Sparseness = 76.4 %
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Analysis took 0.0409 secs ( 0.000171  )
  Fitting model using coxpht
  Analysis took 0.0208 secs
  Using prior: None
  
  log post: -153.591 (-153.591 + 0) (iter:1, conv: 0.987315) 
  
  log post: -140.356 (-140.356 + 0) (iter:2, conv: 0.418345) 
  
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  log post: -126.384 (-126.384 + 0) (iter:4, conv: 0.18403) 
  
  log post: -122.381 (-122.381 + 0) (iter:5, conv: 0.13696) 
  
  log post: -119.443 (-119.443 + 0) (iter:6, conv: 0.106924) 
  
  log post: -117.232 (-117.232 + 0) (iter:7, conv: 0.086332) 
  
  log post: -115.533 (-115.533 + 0) (iter:8, conv: 0.0714192) 
  
  log post: -114.208 (-114.208 + 0) (iter:9, conv: 0.0601726) 
  
  log post: -113.161 (-113.161 + 0) (iter:10, conv: 0.0514226) 
  
  log post: -112.324 (-112.324 + 0) (iter:11, conv: 0.0444455) 
  
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  log post: -110.656 (-110.656 + 0) (iter:14, conv: 0.0301443) 
  
  log post: -110.289 (-110.289 + 0) (iter:15, conv: 0.0268092) 
  
  log post: -109.985 (-109.985 + 0) (iter:16, conv: 0.0239533) 
  
  log post: -109.734 (-109.734 + 0) (iter:17, conv: 0.0214871) 
  
  log post: -109.524 (-109.524 + 0) (iter:18, conv: 0.0193415) 
  
  log post: -109.349 (-109.349 + 0) (iter:19, conv: 0.017463) 
  
  log post: -109.203 (-109.203 + 0) (iter:20, conv: 0.015809) 
  
  log post: -109.08 (-109.08 + 0) (iter:21, conv: 0.0143454) 
  
  log post: -108.976 (-108.976 + 0) (iter:22, conv: 0.0130446) 
  
  log post: -108.889 (-108.889 + 0) (iter:23, conv: 0.011884) 
  
  log post: -108.815 (-108.815 + 0) (iter:24, conv: 0.0108446) 
  
  log post: -108.753 (-108.753 + 0) (iter:25, conv: 0.00991073) 
  
  log post: -108.7 (-108.7 + 0) (iter:26, conv: 0.00906605) 
  
  log post: -108.655 (-108.655 + 0) (iter:27, conv: 0.00830381) 
  
  log post: -108.616 (-108.616 + 0) (iter:28, conv: 0.00761432) 
  
  log post: -108.584 (-108.584 + 0) (iter:29, conv: 0.0069893) 
  
  log post: -108.556 (-108.556 + 0) (iter:30, conv: 0.0064216) 
  
  log post: -108.533 (-108.533 + 0) (iter:31, conv: 0.00590505) 
  
  log post: -108.512 (-108.512 + 0) (iter:32, conv: 0.00543428) 
  
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  log post: -108.481 (-108.481 + 0) (iter:34, conv: 0.00461189) 
  
  log post: -108.468 (-108.468 + 0) (iter:35, conv: 0.00425252) 
  
  log post: -108.457 (-108.457 + 0) (iter:36, conv: 0.00392329) 
  
  log post: -108.448 (-108.448 + 0) (iter:37, conv: 0.00362136) 
  
  log post: -108.44 (-108.44 + 0) (iter:38, conv: 0.0033442) 
  
  log post: -108.433 (-108.433 + 0) (iter:39, conv: 0.00308955) 
  
  log post: -108.427 (-108.427 + 0) (iter:40, conv: 0.0028554) 
  
  log post: -108.422 (-108.422 + 0) (iter:41, conv: 0.00263994) 
  
  log post: -108.418 (-108.418 + 0) (iter:42, conv: 0.00244154) 
  
  log post: -108.415 (-108.415 + 0) (iter:43, conv: 0.00225873) 
  
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  log post: -108.406 (-108.406 + 0) (iter:46, conv: 0.00179126) 
  
  log post: -108.404 (-108.404 + 0) (iter:47, conv: 0.00165879) 
  
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  log post: -108.4 (-108.4 + 0) (iter:50, conv: 0.00131885) 
  
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  log post: -108.396 (-108.396 + 0) (iter:54, conv: 0.000973536) 
  
  log post: -108.396 (-108.396 + 0) (iter:55, conv: 0.000902672) 
  
  log post: -108.395 (-108.395 + 0) (iter:56, conv: 0.000837057) 
  
  log post: -108.395 (-108.395 + 0) (iter:57, conv: 0.00077629) 
  
  log post: -108.394 (-108.394 + 0) (iter:58, conv: 0.000720002) 
  
  log post: -108.394 (-108.394 + 0) (iter:59, conv: 0.000667853) 
  
  log post: -108.394 (-108.394 + 0) (iter:60, conv: 0.00061953) 
  
  log post: -108.393 (-108.393 + 0) (iter:61, conv: 0.000574747) 
  
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  log post: -108.393 (-108.393 + 0) (iter:63, conv: 0.000494758) 
  
  log post: -108.393 (-108.393 + 0) (iter:64, conv: 0.000459082) 
  
  log post: -108.393 (-108.393 + 0) (iter:65, conv: 0.000426002) 
  
  log post: -108.393 (-108.393 + 0) (iter:66, conv: 0.000395326) 
  
  log post: -108.393 (-108.393 + 0) (iter:67, conv: 0.000366876) 
  
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  log post: -108.392 (-108.392 + 0) (iter:85, conv: 9.61414e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:86, conv: 8.92637e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:87, conv: 8.28789e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:88, conv: 7.69515e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:89, conv: 7.14487e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:90, conv: 6.634e-05) 
  
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  log post: -108.392 (-108.392 + 0) (iter:92, conv: 5.71936e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:93, conv: 5.31053e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:94, conv: 4.93095e-05) 
  
  log post: -108.392 (-108.392 + 0) (iter:95, conv: 4.57854e-05) 
  
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  log post: -108.392 (-108.392 + 0) (iter:133, conv: 2.74042e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:134, conv: 2.54474e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:135, conv: 2.36304e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:136, conv: 2.19431e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:137, conv: 2.03763e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:138, conv: 1.89214e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:139, conv: 1.75703e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:140, conv: 1.63158e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:141, conv: 1.51508e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:142, conv: 1.4069e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:143, conv: 1.30644e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:144, conv: 1.21316e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:145, conv: 1.12654e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:146, conv: 1.0461e-06) 
  
  log post: -108.392 (-108.392 + 0) (iter:147, conv: 9.71411e-07) Reached convergence criterion
  Using prior: Laplace(1.41421) None 
  
  KKT Swindle count 1, activeSet size =  1
  update time: 2.6317e-05 in 3 iterations.
  Inactive set violations: 1
  
  KKT Swindle count 2, activeSet size =  2
  update time: 0.00141812 in 134 iterations.
  Sparseness = 99.012 %
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Generating censoring weights
  Generating censoring weights
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Using cross-validation selector type byRow
  Performing 10-fold cross-validation [seed = 1698499694] with data partitions of sizes 1 1 1 1 1 1 1 1 1 0
  Using 1 thread(s)
  Starting var = 0.333333 (default)
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #1 Rep #1 pred log like = 14.674
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #2 Rep #1 pred log like = 79.8291
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #3 Rep #1 pred log like = 112.869
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #4 Rep #1 pred log like = 106.597
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #5 Rep #1 pred log like = 44.5696
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #6 Rep #1 pred log like = 20.3427
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #7 Rep #1 pred log like = 59.4911
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #8 Rep #1 pred log like = 33.6249
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #9 Rep #1 pred log like = 24.9457
  Running at Laplace(2.44949) None  Grid-point #1 at 0.333333 	Fold #10 Rep #1 pred log like = 0
  AvgPred = 49.6943 with stdev = 36.9967
  Completed at 0.333333
  Next point at 3.33333 with value 0 and continue = 1
  search[ 0.333333 ] = 49.6943(36.9967)
  
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #1 Rep #1 pred log like = 14.5878
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #2 Rep #1 pred log like = 79.7695
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #3 Rep #1 pred log like = 110.219
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #4 Rep #1 pred log like = 106.149
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #5 Rep #1 pred log like = 44.6337
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #6 Rep #1 pred log like = 20.3443
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #7 Rep #1 pred log like = 57.3442
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #8 Rep #1 pred log like = 32.8914
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #9 Rep #1 pred log like = 24.792
  Running at Laplace(0.774597) None  Grid-point #2 at 3.33333 	Fold #10 Rep #1 pred log like = 0
  AvgPred = 49.0731 with stdev = 36.4706
  Completed at 3.33333
  Next point at 0.0333333 with value 0 and continue = 1
  search[ 0.333333 ] = 49.6943(36.9967)
  search[ 3.33333 ] = 49.0731(36.4706)
  
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #1 Rep #1 pred log like = 15.7524
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #2 Rep #1 pred log like = 79.6334
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #3 Rep #1 pred log like = 118.443
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #4 Rep #1 pred log like = 107.806
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #5 Rep #1 pred log like = 43.169
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #6 Rep #1 pred log like = 20.3273
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #7 Rep #1 pred log like = 60.6085
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #8 Rep #1 pred log like = 34.0061
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #9 Rep #1 pred log like = 25.0614
  Running at Laplace(7.74597) None  Grid-point #3 at 0.0333333 	Fold #10 Rep #1 pred log like = 0
  AvgPred = 50.4807 with stdev = 38.0685
  Completed at 0.0333333
  Next point at 0.00333333 with value 0 and continue = 1
  search[ 0.0333333 ] = 50.4807(38.0685)
  search[ 0.333333 ] = 49.6943(36.9967)
  search[ 3.33333 ] = 49.0731(36.4706)
  
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #1 Rep #1 pred log like = 16.8111
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #2 Rep #1 pred log like = 79.0526
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #3 Rep #1 pred log like = 118.246
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #4 Rep #1 pred log like = 106.001
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #5 Rep #1 pred log like = 42.498
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #6 Rep #1 pred log like = 19.9614
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #7 Rep #1 pred log like = 62.1884
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #8 Rep #1 pred log like = 33.9945
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #9 Rep #1 pred log like = 25.4635
  Running at Laplace(24.4949) None  Grid-point #4 at 0.00333333 	Fold #10 Rep #1 pred log like = 0
  AvgPred = 50.4216 with stdev = 37.6865
  Completed at 0.00333333
  Next point at 0.00389909 with value 50.4732 and continue = 0
  search[ 0.00333333 ] = 50.4216(37.6865)
  search[ 0.0333333 ] = 50.4807(38.0685)
  search[ 0.333333 ] = 49.6943(36.9967)
  search[ 3.33333 ] = 49.0731(36.4706)
  
  
  Maximum predicted log likelihood (50.4732) estimated at:
  	0.00389909 (variance)
  	22.6482 (lambda)
  
  Fitting model at optimal hyperparameter
  Using prior: Laplace(22.6482) None 
  Sparseness = 80.112 %
  Sorting covariates by covariateId, stratumId, and rowId
  Using cross-validation selector type byPid
  Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 100 100 100 100 100 100 100 100 100 100
  Using 1 thread(s)
  Starting var = 0.1
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #1 Rep #1 pred log like = -14146.5
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #2 Rep #1 pred log like = -13824.3
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #3 Rep #1 pred log like = -13922.5
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #4 Rep #1 pred log like = -12009.7
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #5 Rep #1 pred log like = -13190.5
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #6 Rep #1 pred log like = -14032
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #7 Rep #1 pred log like = -13053.7
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #8 Rep #1 pred log like = -13911.1
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #9 Rep #1 pred log like = -13560.8
  Running at Laplace(4.47214) None  Grid-point #1 at 0.1 	Fold #10 Rep #1 pred log like = -13052.5
  AvgPred = -13470.4 with stdev = 621.67
  Completed at 0.1
  Next point at 1 with value 0 and continue = 1
  search[ 0.1 ] = -13470.4(621.67)
  
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #1 Rep #1 pred log like = -14146.5
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #2 Rep #1 pred log like = -13824.3
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #3 Rep #1 pred log like = -13922.5
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #4 Rep #1 pred log like = -12009.7
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #5 Rep #1 pred log like = -13190.5
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #6 Rep #1 pred log like = -14032
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #7 Rep #1 pred log like = -13053.7
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #8 Rep #1 pred log like = -13911.1
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #9 Rep #1 pred log like = -13560.8
  Running at Laplace(1.41421) None  Grid-point #2 at 1 	Fold #10 Rep #1 pred log like = -13052.4
  AvgPred = -13470.4 with stdev = 621.671
  Completed at 1
  Next point at 0.01 with value 0 and continue = 1
  search[ 0.1 ] = -13470.4(621.67)
  search[ 1 ] = -13470.4(621.671)
  
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #1 Rep #1 pred log like = -14146.5
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #2 Rep #1 pred log like = -13824.3
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #3 Rep #1 pred log like = -13922.5
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #4 Rep #1 pred log like = -12009.7
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #5 Rep #1 pred log like = -13190.3
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #6 Rep #1 pred log like = -14031.9
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #7 Rep #1 pred log like = -13053.7
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #8 Rep #1 pred log like = -13911.1
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #9 Rep #1 pred log like = -13560.8
  Running at Laplace(14.1421) None  Grid-point #3 at 0.01 	Fold #10 Rep #1 pred log like = -13052.6
  AvgPred = -13470.3 with stdev = 621.666
  Completed at 0.01
  Next point at 0.001 with value 0 and continue = 1
  search[ 0.01 ] = -13470.3(621.666)
  search[ 0.1 ] = -13470.4(621.67)
  search[ 1 ] = -13470.4(621.671)
  
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #1 Rep #1 pred log like = -14146.6
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #2 Rep #1 pred log like = -13824.2
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #3 Rep #1 pred log like = -13922.5
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #4 Rep #1 pred log like = -12009.6
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #5 Rep #1 pred log like = -13189.8
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #6 Rep #1 pred log like = -14031.6
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #7 Rep #1 pred log like = -13053.7
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #8 Rep #1 pred log like = -13911.2
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #9 Rep #1 pred log like = -13561
  Running at Laplace(44.7214) None  Grid-point #4 at 0.001 	Fold #10 Rep #1 pred log like = -13052.9
  AvgPred = -13470.3 with stdev = 621.685
  Completed at 0.001
  Next point at 0.0001 with value 0 and continue = 1
  search[ 0.001 ] = -13470.3(621.685)
  search[ 0.01 ] = -13470.3(621.666)
  search[ 0.1 ] = -13470.4(621.67)
  search[ 1 ] = -13470.4(621.671)
  
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #1 Rep #1 pred log like = -14146.6
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #2 Rep #1 pred log like = -13824.4
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #3 Rep #1 pred log like = -13922.3
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #4 Rep #1 pred log like = -12009.6
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #5 Rep #1 pred log like = -13189
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #6 Rep #1 pred log like = -14030.9
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #7 Rep #1 pred log like = -13053.6
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #8 Rep #1 pred log like = -13911.5
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #9 Rep #1 pred log like = -13561
  Running at Laplace(141.421) None  Grid-point #5 at 0.0001 	Fold #10 Rep #1 pred log like = -13053.1
  AvgPred = -13470.2 with stdev = 621.656
  Completed at 0.0001
  Next point at 1e-05 with value 0 and continue = 1
  search[ 0.0001 ] = -13470.2(621.656)
  search[ 0.001 ] = -13470.3(621.685)
  search[ 0.01 ] = -13470.3(621.666)
  search[ 0.1 ] = -13470.4(621.67)
  search[ 1 ] = -13470.4(621.671)
  
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #1 Rep #1 pred log like = -14146.6
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #2 Rep #1 pred log like = -13825.3
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #3 Rep #1 pred log like = -13922.8
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #4 Rep #1 pred log like = -12011.1
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #5 Rep #1 pred log like = -13189.7
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #6 Rep #1 pred log like = -14031.3
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #7 Rep #1 pred log like = -13054.9
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #8 Rep #1 pred log like = -13912.9
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #9 Rep #1 pred log like = -13562
  Running at Laplace(447.214) None  Grid-point #6 at 1e-05 	Fold #10 Rep #1 pred log like = -13054.1
  AvgPred = -13471.1 with stdev = 621.373
  Completed at 1e-05
  Next point at 0.0125877 with value -13470.2 and continue = 0
  search[ 1e-05 ] = -13471.1(621.373)
  search[ 0.0001 ] = -13470.2(621.656)
  search[ 0.001 ] = -13470.3(621.685)
  search[ 0.01 ] = -13470.3(621.666)
  search[ 0.1 ] = -13470.4(621.67)
  search[ 1 ] = -13470.4(621.671)
  
  
  Maximum predicted log likelihood (-13470.2) estimated at:
  	0.0125877 (variance)
  	12.605 (lambda)
  
  Fitting model at optimal hyperparameter
  Using prior: Laplace(12.605) None 
  Sparseness = 80.112 %
  Sorting outcomes by stratumId, time (descending), y and rowId
  Sorting covariates by covariateId, stratumId, time (descending), y, and rowId
  Sparseness = 99.09 %
  Sorting covariates by covariateId and rowId
  [ FAIL 1 | WARN 3 | SKIP 19 | PASS 302 ]
  
  ══ Skipped tests (19) ══════════════════════════════════════════════════════════
  • Current not working (1): 'test-offsetPoisson.R:41:5'
  • On CRAN (10): 'test-cv.R:37:5', 'test-cv.R:110:5', 'test-cv.R:148:5',
    'test-dataConversionStratified.R:110:3', 'test-largeBernoulli.R:26:5',
    'test-largeBernoulli.R:73:5', 'test-parameterizedPriors.R:88:5',
    'test-smallExactCLR.R:9:5', 'test-smallExactCLR.R:32:5',
    'test-weighted_cv.R:5:5'
  • Takes much too longer (1): 'test-largeProfileLikelihood.R:7:5'
  • empty test (6): 'test-believedBroken.R:75:1', 'test-cprViaSql.R:5:1',
    'test-multitypePoisson.R:113:1', 'test-multitypePoisson.R:146:1',
    'test-sqlConstructor.R:99:1', 'test-weighting.R:259:1'
  • for debugging purposes; simulation takes too long (1):
    'test-floatingPoint.R:57:5'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-dataConversionUnstratified.R:95:3'): Test poisson regression ───
  Error in `outcomes$time`: The `$` method of <tbl_lazy> is for internal use only.
  ℹ Use `dplyr::pull()` to get the values in a column.
  Backtrace:
      ▆
   1. ├─Cyclops::convertToCyclopsData(...) at test-dataConversionUnstratified.R:95:2
   2. └─Cyclops:::convertToCyclopsData.tbl_dbi(...)
   3.   ├─outcomes$time
   4.   └─dbplyr:::`$.tbl_lazy`(outcomes, "time")
   5.     └─cli::cli_abort(...)
   6.       └─rlang::abort(...)
  
  [ FAIL 1 | WARN 3 | SKIP 19 | PASS 302 ]
  Error: Test failures
  Execution halted