Last updated on 2020-04-09 09:48:06 CEST.

Flavor | Version | T_{install} | T_{check} | T_{total} | Status | Flags |
---|---|---|---|---|---|---|

r-devel-linux-x86_64-debian-clang | 2.0.2 | 210.08 | 90.76 | 300.84 | ERROR | |

r-devel-linux-x86_64-debian-gcc | 2.0.2 | 153.22 | 71.22 | 224.44 | ERROR | |

r-devel-linux-x86_64-fedora-clang | 2.0.2 | 440.63 | ERROR | |||

r-devel-linux-x86_64-fedora-gcc | 2.0.2 | 412.79 | ERROR | |||

r-devel-windows-ix86+x86_64 | 2.0.2 | 357.00 | 154.00 | 511.00 | ERROR | |

r-devel-windows-ix86+x86_64-gcc8 | 2.0.2 | 362.00 | 154.00 | 516.00 | ERROR | |

r-patched-linux-x86_64 | 2.0.2 | 167.03 | 87.41 | 254.44 | ERROR | |

r-patched-osx-x86_64 | 2.0.2 | ERROR | ||||

r-patched-solaris-x86 | 2.0.2 | 383.70 | ERROR | |||

r-release-linux-x86_64 | 2.0.2 | 169.02 | 81.41 | 250.43 | OK | |

r-release-windows-ix86+x86_64 | 2.0.2 | 408.00 | 204.00 | 612.00 | OK | |

r-release-osx-x86_64 | 2.0.2 | NOTE | ||||

r-oldrel-windows-ix86+x86_64 | 2.0.2 | 499.00 | 196.00 | 695.00 | OK | |

r-oldrel-osx-x86_64 | 2.0.2 | NOTE |

Version: 2.0.2

Check: tests

Result: ERROR

Running 'testthat.R' [17s/19s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -578.668

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -573.942

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -590.902

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.175

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -587.057

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.432

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -577.729

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -611.017

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -594.266

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -594.057

AvgPred = -588.324 with stdev = 10.7386

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -579.005

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -573.501

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -593.578

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -583.972

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -589.141

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -598.568

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -579.41

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -611.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -595.563

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -596.237

AvgPred = -590.035 with stdev = 10.7482

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -579.265

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -575.14

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -588.558

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -574.136

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -588.009

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -595.77

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -576.398

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -612.9

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -594.761

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -591.299

AvgPred = -587.624 with stdev = 11.421

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -584.521

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -578.463

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -592.864

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -581.751

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -596.902

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -604.67

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -581.532

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -619.348

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -598.041

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -593.315

AvgPred = -593.141 with stdev = 11.8836

Completed at 0.001

Next point at 0.0549544 with value -587.448 and continue = 0

search[ 0.001 ] = -593.141(11.8836)

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Maximum predicted log likelihood (-587.448) estimated at:

0.0549544 (variance)

6.03273 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(6.03273) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1586278237] 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 = -2.77056

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -7.52074

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -9.40993

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -5.31322

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -4.84215

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -2.95363

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -15.8476

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.5005 with stdev = 4.96511

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.5005(4.96511)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -3.50399

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -9.66602

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -9.85812

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -5.39944

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -4.90175

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -16.7877

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -3.10645

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -15.784

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.12153 with stdev = 5.42583

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.5005(4.96511)

search[ 3.33333 ] = -7.12153(5.42583)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -2.38933

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -8.2011

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -5.03781

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -8.56408

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -2.83787

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.714 with stdev = 4.63275

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.714(4.63275)

search[ 0.333333 ] = -6.5005(4.96511)

search[ 3.33333 ] = -7.12153(5.42583)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -2.40093

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -5.61865

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.7731 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00422233 with value -5.71924 and continue = 0

search[ 0.00333333 ] = -5.7731(4.9802)

search[ 0.0333333 ] = -5.714(4.63275)

search[ 0.333333 ] = -6.5005(4.96511)

search[ 3.33333 ] = -7.12153(5.42583)

Maximum predicted log likelihood (-5.71924) estimated at:

0.00422233 (variance)

21.764 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.764) None

-- 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) -----------

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

-- 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) -----------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) -----------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ---------------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ---------------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ---------------

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

== testthat results ===========================================================

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.0.2

Check: tests

Result: ERROR

Running ‘testthat.R’ [12s/19s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -578.668

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -573.942

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -590.902

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.175

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -587.057

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.432

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -577.729

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -611.017

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -594.266

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -594.057

AvgPred = -588.324 with stdev = 10.7386

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -579.005

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -573.501

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -593.578

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -583.972

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -589.141

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -598.568

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -579.41

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -611.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -595.563

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -596.237

AvgPred = -590.035 with stdev = 10.7482

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -579.265

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -575.14

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -588.558

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -574.136

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -588.009

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -595.77

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -576.398

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -612.9

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -594.761

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -591.299

AvgPred = -587.624 with stdev = 11.421

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -584.521

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -578.463

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -592.864

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -581.751

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -596.902

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -604.67

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -581.532

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -619.348

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -598.041

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -593.315

AvgPred = -593.141 with stdev = 11.8836

Completed at 0.001

Next point at 0.0549544 with value -587.448 and continue = 0

search[ 0.001 ] = -593.141(11.8836)

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Maximum predicted log likelihood (-587.448) estimated at:

0.0549544 (variance)

6.03273 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(6.03273) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1586359459] 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 = -2.77056

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -5.31322

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -2.95369

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -4.84229

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -9.40993

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -7.51895

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -15.8475

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.50033 with stdev = 4.96505

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50033(4.96505)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -3.50399

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -5.39945

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -3.1064

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -16.7876

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -4.90174

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -9.85815

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -9.66591

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -15.7629

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.1194 with stdev = 5.42246

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50033(4.96505)

search[ 3.33333 ] = -7.1194(5.42246)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -2.38933

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -2.83786

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -8.56491

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -5.03779

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -8.2011

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.71408 with stdev = 4.6328

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.71408(4.6328)

search[ 0.333333 ] = -6.50033(4.96505)

search[ 3.33333 ] = -7.1194(5.42246)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -2.40093

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -3.17614

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -2.43581

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -5.61869

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.77311 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00420099 with value -5.71926 and continue = 0

search[ 0.00333333 ] = -5.77311(4.9802)

search[ 0.0333333 ] = -5.71408(4.6328)

search[ 0.333333 ] = -6.50033(4.96505)

search[ 3.33333 ] = -7.1194(5.42246)

Maximum predicted log likelihood (-5.71926) estimated at:

0.00420099 (variance)

21.8192 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.8192) None

── 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) ───────────

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

── 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) ───────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) ───────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ───────────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ───────────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ───────────────

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

══ testthat results ═══════════════════════════════════════════════════════════

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.0.2

Check: package dependencies

Result: WARN

Requires orphaned package: ‘bit’

Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.0.2

Check: installed package size

Result: NOTE

installed size is 27.0Mb

sub-directories of 1Mb or more:

libs 26.2Mb

Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64-gcc8, r-patched-osx-x86_64, r-patched-solaris-x86, r-release-osx-x86_64, r-oldrel-osx-x86_64

Version: 2.0.2

Check: tests

Result: ERROR

Running ‘testthat.R’ [18s/23s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -592.9

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -601.081

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -599.641

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -574.165

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -603.109

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -577.038

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -579.617

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -574.139

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -585.025

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -594.685

AvgPred = -588.14 with stdev = 10.8916

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.14(10.8916)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -594.279

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -601.346

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -603.591

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -578.205

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -603.804

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -577.407

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -581.721

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -578.157

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -586.404

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -597.769

AvgPred = -590.268 with stdev = 10.4946

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.14(10.8916)

search[ 1 ] = -590.268(10.4946)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -592.323

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -604.374

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -596.081

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -572.406

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -603.71

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -577.372

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -577.208

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -572.442

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -585.33

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -594.139

AvgPred = -587.538 with stdev = 11.6458

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.538(11.6458)

search[ 0.1 ] = -588.14(10.8916)

search[ 1 ] = -590.268(10.4946)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -596.137

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -613.325

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -601.605

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -577.932

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -605.861

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -584.422

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -581.158

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -579.934

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -590.138

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -600.442

AvgPred = -593.096 with stdev = 11.565

Completed at 0.001

Next point at 0.0510146 with value -587.304 and continue = 0

search[ 0.001 ] = -593.096(11.565)

search[ 0.01 ] = -587.538(11.6458)

search[ 0.1 ] = -588.14(10.8916)

search[ 1 ] = -590.268(10.4946)

Maximum predicted log likelihood (-587.304) estimated at:

0.0510146 (variance)

6.26134 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(6.26134) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1585983417] 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 = -4.84214

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -2.77049

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -2.95361

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -5.31323

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -9.40993

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -7.51895

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -15.8475

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.5003 with stdev = 4.96507

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.5003(4.96507)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -4.90173

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -3.50399

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -3.10731

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -5.39945

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -9.85805

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -9.66591

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -15.7629

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -16.7877

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.11949 with stdev = 5.42239

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.5003(4.96507)

search[ 3.33333 ] = -7.11949(5.42239)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -5.03785

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -2.38932

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -2.83786

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -8.20108

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -8.56407

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.714 with stdev = 4.63275

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.714(4.63275)

search[ 0.333333 ] = -6.5003(4.96507)

search[ 3.33333 ] = -7.11949(5.42239)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -5.61866

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -2.40094

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.7731 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00420381 with value -5.71924 and continue = 0

search[ 0.00333333 ] = -5.7731(4.9802)

search[ 0.0333333 ] = -5.714(4.63275)

search[ 0.333333 ] = -6.5003(4.96507)

search[ 3.33333 ] = -7.11949(5.42239)

Maximum predicted log likelihood (-5.71924) estimated at:

0.00420381 (variance)

21.8119 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.8119) None

── 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) ───────────

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

── 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) ───────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) ───────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ───────────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ───────────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ───────────────

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

══ testthat results ═══════════════════════════════════════════════════════════

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.0.2

Check: tests

Result: ERROR

Running ‘testthat.R’ [19s/27s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -578.668

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -573.942

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -590.902

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.175

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -587.057

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.432

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -577.729

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -611.017

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -594.266

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -594.057

AvgPred = -588.324 with stdev = 10.7386

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -579.005

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -573.501

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -593.578

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -583.972

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -589.141

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -598.568

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -579.41

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -611.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -595.563

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -596.237

AvgPred = -590.035 with stdev = 10.7482

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -579.265

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -575.14

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -588.558

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -574.136

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -588.009

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -595.77

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -576.398

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -612.9

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -594.761

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -591.299

AvgPred = -587.624 with stdev = 11.421

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -584.521

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -578.463

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -592.864

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -581.751

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -596.902

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -604.67

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -581.532

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -619.348

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -598.041

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -593.315

AvgPred = -593.141 with stdev = 11.8836

Completed at 0.001

Next point at 0.0549544 with value -587.448 and continue = 0

search[ 0.001 ] = -593.141(11.8836)

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Maximum predicted log likelihood (-587.448) estimated at:

0.0549544 (variance)

6.03273 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(6.03273) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1586084157] 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 = -7.51556

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -2.77056

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -5.31322

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -15.8482

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -9.40992

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -4.84215

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -2.95363

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.50003 with stdev = 4.96511

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50003(4.96511)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -9.66612

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -3.50408

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -16.7879

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -5.39946

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -15.7841

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -9.85796

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -4.90174

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -3.10647

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.12156 with stdev = 5.42587

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50003(4.96511)

search[ 3.33333 ] = -7.12156(5.42587)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -2.38933

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -8.5641

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -4.23478

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -8.20115

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -2.22487

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -5.0378

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -2.83785

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.71401 with stdev = 4.63275

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.71401(4.63275)

search[ 0.333333 ] = -6.50003(4.96511)

search[ 3.33333 ] = -7.12156(5.42587)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -2.40093

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -5.61865

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.7731 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00423261 with value -5.71928 and continue = 0

search[ 0.00333333 ] = -5.7731(4.9802)

search[ 0.0333333 ] = -5.71401(4.63275)

search[ 0.333333 ] = -6.50003(4.96511)

search[ 3.33333 ] = -7.12156(5.42587)

Maximum predicted log likelihood (-5.71928) estimated at:

0.00423261 (variance)

21.7376 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.7376) None

── 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) ───────────

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

── 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) ───────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) ───────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ───────────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ───────────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ───────────────

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

══ testthat results ═══════════════════════════════════════════════════════════

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 2.0.2

Check: running tests for arch ‘i386’

Result: ERROR

Running 'testthat.R' [15s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -585.503

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -596.13

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -594.388

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.469

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -609.78

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.728

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -590.234

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -569.379

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -590.255

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -569.965

AvgPred = -588.183 with stdev = 11.9089

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.183(11.9089)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -587.413

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -596.812

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -596.513

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -580.658

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -611.455

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -597.123

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -591.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -569.712

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -593.857

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -574.289

AvgPred = -589.921 with stdev = 11.7004

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -583.59

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -597.107

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -593.164

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -577.713

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -610.25

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -596.412

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -591.679

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -570.174

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -588.619

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -568.46

AvgPred = -587.717 with stdev = 12.3021

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.717(12.3021)

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -594.3

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -600.43

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -596.386

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -585.184

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -616.545

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -597.987

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -594.794

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -574.862

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -594.09

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -578.678

AvgPred = -593.326 with stdev = 11.1631

Completed at 0.001

Next point at 0.0586225 with value -587.372 and continue = 0

search[ 0.001 ] = -593.326(11.1631)

search[ 0.01 ] = -587.717(12.3021)

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Maximum predicted log likelihood (-587.372) estimated at:

0.0586225 (variance)

5.84094 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(5.84094) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1586174999] 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 = -2.77056

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -5.31322

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -7.51898

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -4.84229

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -9.40993

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -15.8481

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -2.9539

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.50041 with stdev = 4.96515

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50041(4.96515)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -3.50399

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -5.39945

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -9.66811

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -16.7877

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -4.90174

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -9.85815

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -15.784

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -3.1064

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.12173 with stdev = 5.42593

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50041(4.96515)

search[ 3.33333 ] = -7.12173(5.42593)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -2.38933

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -8.56421

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -5.03779

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -8.2011

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -2.83786

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.71401 with stdev = 4.63276

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.71401(4.63276)

search[ 0.333333 ] = -6.50041(4.96515)

search[ 3.33333 ] = -7.12173(5.42593)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -2.40093

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -5.61869

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.7731 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00422633 with value -5.71926 and continue = 0

search[ 0.00333333 ] = -5.7731(4.9802)

search[ 0.0333333 ] = -5.71401(4.63276)

search[ 0.333333 ] = -6.50041(4.96515)

search[ 3.33333 ] = -7.12173(5.42593)

Maximum predicted log likelihood (-5.71926) estimated at:

0.00422633 (variance)

21.7537 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.7537) None

-- 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) -----------

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

-- 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) -----------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) -----------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ---------------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ---------------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ---------------

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

== testthat results ===========================================================

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-windows-ix86+x86_64

Version: 2.0.2

Check: running tests for arch ‘x64’

Result: ERROR

Running 'testthat.R' [16s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -585.503

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -596.13

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -594.388

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.469

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -609.78

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.728

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -590.234

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -569.379

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -590.255

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -569.965

AvgPred = -588.183 with stdev = 11.9089

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.183(11.9089)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -587.413

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -596.812

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -596.513

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -580.658

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -611.455

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -597.123

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -591.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -569.712

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -593.857

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -574.289

AvgPred = -589.921 with stdev = 11.7004

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -583.59

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -597.107

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -593.164

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -577.713

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -610.25

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -596.412

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -591.679

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -570.174

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -588.619

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -568.46

AvgPred = -587.717 with stdev = 12.3021

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.717(12.3021)

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -594.3

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -600.43

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -596.386

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -585.184

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -616.545

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -597.987

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -594.794

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -574.862

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -594.09

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -578.678

AvgPred = -593.326 with stdev = 11.1631

Completed at 0.001

Next point at 0.0586225 with value -587.372 and continue = 0

search[ 0.001 ] = -593.326(11.1631)

search[ 0.01 ] = -587.717(12.3021)

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Maximum predicted log likelihood (-587.372) estimated at:

0.0586225 (variance)

5.84094 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(5.84094) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1586175016] 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 = -4.84214

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -15.8475

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -9.40992

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -2.77048

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -7.52074

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -2.95363

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -5.31323

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.50048 with stdev = 4.9651

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50048(4.9651)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -4.90173

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -15.7839

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -9.85796

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -3.50395

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -9.66602

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -3.10645

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -5.39945

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -16.7877

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.1215 with stdev = 5.42581

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50048(4.9651)

search[ 3.33333 ] = -7.1215(5.42581)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -5.03785

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -8.20115

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -2.38932

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -2.83787

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -8.56418

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.71402 with stdev = 4.63276

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.71402(4.63276)

search[ 0.333333 ] = -6.50048(4.9651)

search[ 3.33333 ] = -7.1215(5.42581)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -5.61866

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -2.40094

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.7731 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00422202 with value -5.71925 and continue = 0

search[ 0.00333333 ] = -5.7731(4.9802)

search[ 0.0333333 ] = -5.71402(4.63276)

search[ 0.333333 ] = -6.50048(4.9651)

search[ 3.33333 ] = -7.1215(5.42581)

Maximum predicted log likelihood (-5.71925) estimated at:

0.00422202 (variance)

21.7648 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.7648) None

-- 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) -----------

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

-- 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) -----------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) -----------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ---------------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ---------------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ---------------

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

== testthat results ===========================================================

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-windows-ix86+x86_64

Version: 2.0.2

Check: running tests for arch ‘i386’

Result: ERROR

Running 'testthat.R' [13s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -578.668

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -573.942

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -590.902

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.175

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -587.057

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.432

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -577.729

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -611.017

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -594.266

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -594.057

AvgPred = -588.324 with stdev = 10.7386

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -579.005

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -573.501

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -593.578

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -583.972

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -589.141

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -598.568

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -579.41

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -611.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -595.563

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -596.237

AvgPred = -590.035 with stdev = 10.7482

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -579.265

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -575.14

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -588.558

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -574.136

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -588.009

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -595.77

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -576.398

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -612.9

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -594.761

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -591.299

AvgPred = -587.624 with stdev = 11.421

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -584.521

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -578.463

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -592.864

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -581.751

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -596.902

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -604.67

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -581.532

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -619.348

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -598.041

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -593.315

AvgPred = -593.141 with stdev = 11.8836

Completed at 0.001

Next point at 0.0549544 with value -587.448 and continue = 0

search[ 0.001 ] = -593.141(11.8836)

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Maximum predicted log likelihood (-587.448) estimated at:

0.0549544 (variance)

6.03273 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(6.03273) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1585408600] 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 = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -2.77049

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -2.95361

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -15.8476

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -9.40992

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -4.84215

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -5.31322

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -7.51898

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.50031 with stdev = 4.96508

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50031(4.96508)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -3.50399

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -3.10731

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -15.784

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -9.85796

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -4.90173

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -16.7877

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -5.39946

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -9.66811

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.12181 with stdev = 5.42586

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50031(4.96508)

search[ 3.33333 ] = -7.12181(5.42586)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -2.38932

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -2.83786

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -8.20115

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -5.03777

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -8.56408

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -4.23478

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.71401 with stdev = 4.63275

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.71401(4.63275)

search[ 0.333333 ] = -6.50031(4.96508)

search[ 3.33333 ] = -7.12181(5.42586)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -2.40094

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -5.61869

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.77311 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00422948 with value -5.71926 and continue = 0

search[ 0.00333333 ] = -5.77311(4.9802)

search[ 0.0333333 ] = -5.71401(4.63275)

search[ 0.333333 ] = -6.50031(4.96508)

search[ 3.33333 ] = -7.12181(5.42586)

Maximum predicted log likelihood (-5.71926) estimated at:

0.00422948 (variance)

21.7456 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.7456) None

-- 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) -----------

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

-- 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) -----------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) -----------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ---------------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ---------------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ---------------

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

== testthat results ===========================================================

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-windows-ix86+x86_64-gcc8

Version: 2.0.2

Check: running tests for arch ‘x64’

Result: ERROR

Running 'testthat.R' [15s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -578.668

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -573.942

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -590.902

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.175

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -587.057

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.432

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -577.729

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -611.017

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -594.266

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -594.057

AvgPred = -588.324 with stdev = 10.7386

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -579.005

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -573.501

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -593.578

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -583.972

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -589.141

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -598.568

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -579.41

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -611.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -595.563

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -596.237

AvgPred = -590.035 with stdev = 10.7482

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -579.265

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -575.14

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -588.558

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -574.136

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -588.009

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -595.77

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -576.398

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -612.9

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -594.761

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -591.299

AvgPred = -587.624 with stdev = 11.421

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -584.521

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -578.463

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -592.864

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -581.751

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -596.902

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -604.67

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -581.532

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -619.348

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -598.041

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -593.315

AvgPred = -593.141 with stdev = 11.8836

Completed at 0.001

Next point at 0.0549544 with value -587.448 and continue = 0

search[ 0.001 ] = -593.141(11.8836)

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Maximum predicted log likelihood (-587.448) estimated at:

0.0549544 (variance)

6.03273 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(6.03273) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1585408616] 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 = -7.51556

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -4.84214

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -2.77047

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -9.40993

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -5.31322

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -2.95363

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -15.8476

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.49996 with stdev = 4.965

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.49996(4.965)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -9.66612

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -4.90184

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -3.50398

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -7.7905

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -5.39945

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -3.10645

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -16.7876

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -15.784

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.91479 with stdev = 5.35657

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.49996(4.965)

search[ 3.33333 ] = -6.91479(5.35657)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -5.03782

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -2.38932

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -8.20109

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -2.83787

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -8.56491

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.71409 with stdev = 4.6328

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.71409(4.6328)

search[ 0.333333 ] = -6.49996(4.965)

search[ 3.33333 ] = -6.91479(5.35657)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -5.61866

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -2.40094

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.7731 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00197988 with value -5.70421 and continue = 0

search[ 0.00333333 ] = -5.7731(4.9802)

search[ 0.0333333 ] = -5.71409(4.6328)

search[ 0.333333 ] = -6.49996(4.965)

search[ 3.33333 ] = -6.91479(5.35657)

Maximum predicted log likelihood (-5.70421) estimated at:

0.00197988 (variance)

31.7831 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(31.7831) None

-- 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) -----------

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

-- 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) -----------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) -----------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ---------------

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

-- 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ---------------

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

-- 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ---------------

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

== testthat results ===========================================================

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-devel-windows-ix86+x86_64-gcc8

Version: 2.0.2

Check: tests

Result: ERROR

Running ‘testthat.R’ [15s/17s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -578.668

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -573.942

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -590.902

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.175

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -587.057

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.432

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -577.729

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -611.017

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -594.266

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -594.057

AvgPred = -588.324 with stdev = 10.7386

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -579.005

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -573.501

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -593.578

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -583.972

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -589.141

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -598.568

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -579.41

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -611.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -595.563

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -596.237

AvgPred = -590.035 with stdev = 10.7482

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -579.265

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -575.14

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -588.558

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -574.136

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -588.009

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -595.77

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -576.398

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -612.9

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -594.761

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -591.299

AvgPred = -587.624 with stdev = 11.421

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -584.521

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -578.463

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -592.864

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -581.751

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -596.902

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -604.67

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -581.532

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -619.348

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -598.041

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -593.315

AvgPred = -593.141 with stdev = 11.8836

Completed at 0.001

Next point at 0.0549544 with value -587.448 and continue = 0

search[ 0.001 ] = -593.141(11.8836)

search[ 0.01 ] = -587.624(11.421)

search[ 0.1 ] = -588.324(10.7386)

search[ 1 ] = -590.035(10.7482)

Maximum predicted log likelihood (-587.448) estimated at:

0.0549544 (variance)

6.03273 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(6.03273) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1586334486] 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 = -2.77056

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -5.31322

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -4.84229

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -7.51909

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -2.95363

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -9.40993

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -15.8481

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.5004 with stdev = 4.96517

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.5004(4.96517)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -3.50399

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -5.39945

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -16.7877

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -4.90174

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -9.6661

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -3.10646

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -9.85815

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -15.784

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.12154 with stdev = 5.42583

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.5004(4.96517)

search[ 3.33333 ] = -7.12154(5.42583)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -2.38933

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -8.56418

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -5.03779

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -2.8379

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -8.20109

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.71401 with stdev = 4.63275

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.71401(4.63275)

search[ 0.333333 ] = -6.5004(4.96517)

search[ 3.33333 ] = -7.12154(5.42583)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -2.40093

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -3.17614

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -5.61869

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -2.43581

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.77311 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00422463 with value -5.71926 and continue = 0

search[ 0.00333333 ] = -5.77311(4.9802)

search[ 0.0333333 ] = -5.71401(4.63275)

search[ 0.333333 ] = -6.5004(4.96517)

search[ 3.33333 ] = -7.12154(5.42583)

Maximum predicted log likelihood (-5.71926) estimated at:

0.00422463 (variance)

21.7581 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.7581) None

── 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) ───────────

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

── 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) ───────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) ───────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ───────────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ───────────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ───────────────

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

══ testthat results ═══════════════════════════════════════════════════════════

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-patched-linux-x86_64

Version: 2.0.2

Check: tests

Result: ERROR

Running ‘testthat.R’ [12s/17s]

Running the tests in ‘tests/testthat.R’ failed.

Last 13 lines of output:

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

══ testthat results ═══════════════════════════════════════════════════════════

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-patched-osx-x86_64

Version: 2.0.2

Check: tests

Result: ERROR

Running ‘testthat.R’ [29s/33s]

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 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

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 76.245 %

Sorting covariates by covariateId, 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

Sparseness = 75.76 %

Sorting covariates by covariateId, rowId

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 75.61 %

Sorting covariates by covariateId and rowId

Sparseness = 75.695 %

Sorting covariates by covariateId and rowId

Sparseness = 75.3 %

Sorting covariates by covariateId and rowId

Sparseness = 76.55 %

Sorting covariates by covariateId and rowId

Sparseness = 99.012 %

Sorting outcomes by stratumId, time (descending), y and rowId

Sorting covariates by covariateId, stratumId, time (descending), y, and rowId

Sparseness = 98.0118 %

Sorting covariates by covariateId and rowId

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 123] with data partitions of sizes 1000 1000 1000 1000 1000 1000 1000 1000 1000 1000

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 = -585.503

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #2 Rep #1 pred log like = -596.13

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #3 Rep #1 pred log like = -594.388

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #4 Rep #1 pred log like = -579.469

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #5 Rep #1 pred log like = -609.78

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #6 Rep #1 pred log like = -596.728

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #7 Rep #1 pred log like = -590.234

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #8 Rep #1 pred log like = -569.379

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #9 Rep #1 pred log like = -590.255

Running at Laplace(4.47214) None Grid-point #1 at 0.1 Fold #10 Rep #1 pred log like = -569.965

AvgPred = -588.183 with stdev = 11.9089

Completed at 0.1

Next point at 1 with value 0 and continue = 1

search[ 0.1 ] = -588.183(11.9089)

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #1 Rep #1 pred log like = -587.413

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #2 Rep #1 pred log like = -596.812

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #3 Rep #1 pred log like = -596.513

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #4 Rep #1 pred log like = -580.658

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #5 Rep #1 pred log like = -611.455

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #6 Rep #1 pred log like = -597.123

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #7 Rep #1 pred log like = -591.374

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #8 Rep #1 pred log like = -569.712

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #9 Rep #1 pred log like = -593.857

Running at Laplace(1.41421) None Grid-point #2 at 1 Fold #10 Rep #1 pred log like = -574.289

AvgPred = -589.921 with stdev = 11.7004

Completed at 1

Next point at 0.01 with value 0 and continue = 1

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #1 Rep #1 pred log like = -583.59

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #2 Rep #1 pred log like = -597.107

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #3 Rep #1 pred log like = -593.164

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #4 Rep #1 pred log like = -577.713

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #5 Rep #1 pred log like = -610.25

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #6 Rep #1 pred log like = -596.412

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #7 Rep #1 pred log like = -591.679

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #8 Rep #1 pred log like = -570.174

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #9 Rep #1 pred log like = -588.619

Running at Laplace(14.1421) None Grid-point #3 at 0.01 Fold #10 Rep #1 pred log like = -568.46

AvgPred = -587.717 with stdev = 12.3021

Completed at 0.01

Next point at 0.001 with value 0 and continue = 1

search[ 0.01 ] = -587.717(12.3021)

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #1 Rep #1 pred log like = -594.3

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #2 Rep #1 pred log like = -600.43

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #3 Rep #1 pred log like = -596.386

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #4 Rep #1 pred log like = -585.184

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #5 Rep #1 pred log like = -616.545

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #6 Rep #1 pred log like = -597.987

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #7 Rep #1 pred log like = -594.794

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #8 Rep #1 pred log like = -574.862

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #9 Rep #1 pred log like = -594.09

Running at Laplace(44.7214) None Grid-point #4 at 0.001 Fold #10 Rep #1 pred log like = -578.678

AvgPred = -593.326 with stdev = 11.1631

Completed at 0.001

Next point at 0.0586225 with value -587.372 and continue = 0

search[ 0.001 ] = -593.326(11.1631)

search[ 0.01 ] = -587.717(12.3021)

search[ 0.1 ] = -588.183(11.9089)

search[ 1 ] = -589.921(11.7004)

Maximum predicted log likelihood (-587.372) estimated at:

0.0586225 (variance)

5.84094 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(5.84094) None

Using cross-validation selector type byRow

Performing 10-fold cross-validation [seed = 1585390533] 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 = -2.20943

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #2 Rep #1 pred log like = -4.84215

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #3 Rep #1 pred log like = -14.1377

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #4 Rep #1 pred log like = -2.77055

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #5 Rep #1 pred log like = -2.95361

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #6 Rep #1 pred log like = -5.31323

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #7 Rep #1 pred log like = -9.40993

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #8 Rep #1 pred log like = -15.8481

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #9 Rep #1 pred log like = -7.51911

Running at Laplace(2.44949) None Grid-point #1 at 0.333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -6.50038 with stdev = 4.96518

Completed at 0.333333

Next point at 3.33333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50038(4.96518)

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #1 Rep #1 pred log like = -2.20787

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #2 Rep #1 pred log like = -4.90174

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #3 Rep #1 pred log like = -16.7877

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #4 Rep #1 pred log like = -3.50648

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #5 Rep #1 pred log like = -3.10731

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #6 Rep #1 pred log like = -5.39945

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #7 Rep #1 pred log like = -9.85805

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #8 Rep #1 pred log like = -15.784

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #9 Rep #1 pred log like = -9.67073

Running at Laplace(0.774597) None Grid-point #2 at 3.33333 Fold #10 Rep #1 pred log like = 0

AvgPred = -7.12233 with stdev = 5.42582

Completed at 3.33333

Next point at 0.0333333 with value 0 and continue = 1

search[ 0.333333 ] = -6.50038(4.96518)

search[ 3.33333 ] = -7.12233(5.42582)

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #1 Rep #1 pred log like = -2.22488

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #2 Rep #1 pred log like = -5.0378

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #3 Rep #1 pred log like = -8.56408

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #4 Rep #1 pred log like = -2.38933

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #5 Rep #1 pred log like = -2.83786

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #6 Rep #1 pred log like = -4.23476

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #7 Rep #1 pred log like = -8.20108

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #8 Rep #1 pred log like = -17.2486

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #9 Rep #1 pred log like = -6.4016

Running at Laplace(7.74597) None Grid-point #3 at 0.0333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.714 with stdev = 4.63275

Completed at 0.0333333

Next point at 0.00333333 with value 0 and continue = 1

search[ 0.0333333 ] = -5.714(4.63275)

search[ 0.333333 ] = -6.50038(4.96518)

search[ 3.33333 ] = -7.12233(5.42582)

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #1 Rep #1 pred log like = -2.59079

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #2 Rep #1 pred log like = -5.61865

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #3 Rep #1 pred log like = -8.76107

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #4 Rep #1 pred log like = -2.40094

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #5 Rep #1 pred log like = -2.4358

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #6 Rep #1 pred log like = -3.17613

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #7 Rep #1 pred log like = -10.0062

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #8 Rep #1 pred log like = -17.9197

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #9 Rep #1 pred log like = -4.82178

Running at Laplace(24.4949) None Grid-point #4 at 0.00333333 Fold #10 Rep #1 pred log like = 0

AvgPred = -5.7731 with stdev = 4.9802

Completed at 0.00333333

Next point at 0.00423374 with value -5.71926 and continue = 0

search[ 0.00333333 ] = -5.7731(4.9802)

search[ 0.0333333 ] = -5.714(4.63275)

search[ 0.333333 ] = -6.50038(4.96518)

search[ 3.33333 ] = -7.12233(5.42582)

Maximum predicted log likelihood (-5.71926) estimated at:

0.00423374 (variance)

21.7347 (lambda)

Fitting model at optimal hyperparameter

Using prior: Laplace(21.7347) None

── 1. Failure: Test basic XY constructor (@test-xyConstructor.R#29) ───────────

summary(dataPtrD)[, "type"] not equal to as.factor(rep("dense", 5)).

Types not compatible: character is not integer

── 2. Failure: Test basic XY constructor (@test-xyConstructor.R#40) ───────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 3. Failure: Test basic XY constructor (@test-xyConstructor.R#51) ───────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 4. Failure: Test COO-constructor (@test-xyConstructor.R#182) ───────────────

summary(dataPtrI)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

── 5. Failure: Test COO-constructor (@test-xyConstructor.R#191) ───────────────

summary(dataPtrS)[, "type"] not equal to as.factor(rep("sparse", 5)).

Types not compatible: character is not integer

── 6. Failure: Test COO-constructor (@test-xyConstructor.R#207) ───────────────

summary(dataPtrA)[, "type"] not equal to as.factor(rep("indicator", 5)).

Types not compatible: character is not integer

Sparseness = 99.09 %

Sorting covariates by covariateId and rowId

══ testthat results ═══════════════════════════════════════════════════════════

[ OK: 245 | SKIPPED: 11 | WARNINGS: 195 | FAILED: 6 ]

1. Failure: Test basic XY constructor (@test-xyConstructor.R#29)

2. Failure: Test basic XY constructor (@test-xyConstructor.R#40)

3. Failure: Test basic XY constructor (@test-xyConstructor.R#51)

4. Failure: Test COO-constructor (@test-xyConstructor.R#182)

5. Failure: Test COO-constructor (@test-xyConstructor.R#191)

6. Failure: Test COO-constructor (@test-xyConstructor.R#207)

Error: testthat unit tests failed

Execution halted

Flavor: r-patched-solaris-x86